@mcmcjs/julia 0.13.0 → 0.14.1
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- package/dist/index.cjs +159 -13
- package/dist/index.cjs.map +1 -1
- package/dist/index.js +188 -38
- package/dist/index.js.map +1 -1
- package/package.json +3 -3
- package/dist/driver.jl +0 -18
- package/dist/fitlib.jl +0 -757
- package/dist/julia-env/Manifest.toml +0 -1840
- package/dist/julia-env/Project.toml +0 -12
- package/dist/worker.jl +0 -102
package/dist/index.js
CHANGED
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@@ -53,7 +53,7 @@ var juliaEngine = {
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};
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// src/fit.ts
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import { existsSync as existsSync2, mkdirSync, mkdtempSync, readFileSync, rmSync, writeFileSync } from "fs";
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import { existsSync as existsSync2, mkdirSync as mkdirSync2, mkdtempSync, readFileSync, rmSync as rmSync2, writeFileSync as writeFileSync2 } from "fs";
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import { join as join3 } from "path";
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import {
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canonicalJson,
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@@ -63,27 +63,176 @@ import {
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// src/runner-common.ts
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import { createHash } from "crypto";
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import { existsSync } from "fs";
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import { tmpdir } from "os";
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import { existsSync, mkdirSync, renameSync, rmSync, writeFileSync } from "fs";
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import { homedir as homedir2, tmpdir } from "os";
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import { dirname, join as join2 } from "path";
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-
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// src/assets.generated.ts
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var JULIA_ASSETS = {
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"driver.jl": `# MCMC.js one-shot fit driver. Reads a run-request JSON file and runs it via
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# fitlib's handle_request. On success a single line of provenance JSON is
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# printed to stdout; failures print one-line JSON to stderr ({error, stage})
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# and exit nonzero. Progress streams to stderr as {"mcmcjs":"progress"} lines.
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include(joinpath(@__DIR__, "fitlib.jl"))
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function main()
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request = JSON.parsefile(ARGS[1])
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result = handle_request(request)
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if result["ok"]
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println(JSON.json(result["provenance"]))
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else
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println(stderr, JSON.json(Dict("error" => result["error"], "stage" => result["stage"])))
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exit(1)
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end
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end
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main()
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`,
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"worker.jl": `# MCMC.js persistent fit worker. Keeps Turing loaded between fits so warm
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# re-fits skip the cold start. Listens on a Unix domain socket (ARGS[1]); each
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# connection carries one JSON request line and receives {"mcmcjs":"progress"}
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# lines followed by one final handle_request result line. A {"mcmcjs":"stop"}
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# request shuts the worker down; so does half an hour of idleness.
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include(joinpath(@__DIR__, "fitlib.jl"))
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using Sockets
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const IDLE_TIMEOUT_S = 30 * 60
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# True while this process still owns the socket path: another worker stealing
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# the path (by binding over it) changes the inode, and a worker that lost the
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# path must never delete its successor's socket.
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function owns_socket(path, ino)
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try
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return stat(path).inode == ino
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catch
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return false
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end
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end
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function remove_if_owned(path, ino)
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if owns_socket(path, ino)
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rm(path; force = true)
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rm(path * ".pid"; force = true)
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end
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end
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function serve(path)
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mkpath(dirname(path))
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if ispath(path)
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# A live worker already serving this path wins; a dead socket file is cleared.
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try
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close(Sockets.connect(path))
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exit(0)
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catch
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rm(path; force = true)
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rm(path * ".pid"; force = true)
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end
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end
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server = Sockets.listen(path)
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ino = stat(path).inode
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# A pidfile beside the socket lets a cancelling client kill this worker
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# mid-fit (it cannot answer a polite stop while busy sampling).
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write(path * ".pid", string(getpid()))
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atexit(() -> remove_if_owned(path, ino))
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last_activity = Ref(time())
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busy = Ref(false)
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# The watchdog task is cooperative: it gets scheduled while the main task
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# blocks on accept. The busy guard is belt and braces for any future
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# multithreaded scheduling.
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@async while true
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sleep(30)
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if !busy[] && time() - last_activity[] > IDLE_TIMEOUT_S
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remove_if_owned(path, ino)
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exit(0)
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end
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end
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while true
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sock = Sockets.accept(server)
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busy[] = true
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stopping = false
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try
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line = readline(sock)
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if isempty(strip(line))
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close(sock)
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continue
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end
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request = JSON.parse(line)
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if get(request, "mcmcjs", "") == "stop"
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stopping = true
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println(sock, JSON.json(Dict("ok" => true, "stopped" => true)))
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else
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PROGRESS_IO[] = sock
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result = try
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handle_request(request)
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finally
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PROGRESS_IO[] = stderr
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end
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println(sock, JSON.json(result))
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end
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close(sock)
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catch err
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try
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println(sock, JSON.json(Dict("ok" => false, "error" => sprint(showerror, err), "stage" => "worker")))
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close(sock)
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catch
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end
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finally
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busy[] = false
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last_activity[] = time()
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end
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if stopping
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remove_if_owned(path, ino)
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exit(0)
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end
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end
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end
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serve(ARGS[1])
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`,
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"fitlib.jl": '# MCMC.js fit library, shared by the one-shot driver (driver.jl) and the\n# persistent worker (worker.jl). handle_request runs one fit or predict request\n# (Turing or JuliaBUGS) and writes the draws as the @mcmcjs/core samples\n# artifact (a flat JSON wire). This is the only place that touches the backend\n# chain type (FlexiChains), so a chain-type change is contained here.\nusing JSON\nusing Logging\nimport Distributed\nusing Random\nusing StableRNGs\nusing Turing\nusing Turing: VarName\nusing SHA\nusing Pkg\n# Imported (not `using`) so they do not pull `@model` etc. into Main and clash\n# with Turing\'s exports, which would break Turing model files on include.\nimport JuliaBUGS\nimport AdvancedHMC\nimport ForwardDiff\n# Loading Mooncake activates AbstractPPL\'s native extension for AutoMooncake.\nimport Mooncake\n# Loading ReverseDiff activates the DynamicPPL extension for AutoReverseDiff.\nimport ReverseDiff\nimport FlexiChains\nimport DimensionalData\n\n# Workers include this file to mirror the master\'s definitions (ModelData, the\n# helpers a deserialized model may reference) when sampling MCMCDistributed.\nconst FITLIB_FILE = @__FILE__\n\n# AbstractMCMC reports sampling progress through ProgressLogging (reachable via\n# Turing\'s dependency, no extra package in the managed env).\nconst ProgressLogging = Turing.AbstractMCMC.ProgressLogging\n\n# Where progress JSON lines go: the driver leaves this on stderr; the worker\n# points it at the client socket for the duration of a request.\nconst PROGRESS_IO = Ref{IO}(stderr)\n\n# Translates ProgressLogging records into one JSON line per update\n# ({"mcmcjs":"progress",...}). The TypeScript side filters these out of the\n# failure protocol\'s stderr buffer. Info-and-above records pass through to a\n# plain console logger; Debug records (AdvancedHMC step-size search) are dropped.\nstruct JSONProgressLogger <: Logging.AbstractLogger\n fallback::Logging.AbstractLogger\n last::Dict{Int,Float64}\nend\nJSONProgressLogger() =\n JSONProgressLogger(Logging.ConsoleLogger(stderr, Logging.Info), Dict{Int,Float64}())\n\nLogging.min_enabled_level(::JSONProgressLogger) = Logging.BelowMinLevel\nLogging.shouldlog(::JSONProgressLogger, args...) = true\nLogging.catch_exceptions(::JSONProgressLogger) = true\n\nfunction emit_progress(logger::JSONProgressLogger, name, fraction, done)\n m = match(r"Chain (\\d+) of (\\d+)", String(name))\n chain = m === nothing ? 1 : parse(Int, m.captures[1])\n of = m === nothing ? 1 : parse(Int, m.captures[2])\n f = done ? 1.0 : fraction === nothing ? 0.0 : Float64(fraction)\n # AbstractMCMC already steps by 1%; the dedupe guards chattier emitters.\n if done || f - get(logger.last, chain, -1.0) >= 0.01\n logger.last[chain] = f\n println(\n PROGRESS_IO[],\n JSON.json(\n Dict(\n "mcmcjs" => "progress",\n "chain" => chain,\n "of" => of,\n "fraction" => round(f; digits = 4),\n "done" => done,\n ),\n ),\n )\n flush(PROGRESS_IO[])\n end\nend\n\nfunction Logging.handle_message(\n logger::JSONProgressLogger, level, message, _module, group, id, file, line; kwargs...\n)\n progress = message isa ProgressLogging.ProgressString ? message.progress :\n message isa ProgressLogging.Progress ? message : nothing\n if progress !== nothing\n emit_progress(logger, progress.name, progress.fraction, progress.done)\n return\n end\n if haskey(kwargs, :progress) && (kwargs[:progress] isa Real || kwargs[:progress] == "done")\n value = kwargs[:progress]\n emit_progress(logger, string(message), value == "done" ? nothing : value, value == "done")\n return\n end\n level >= Logging.Info || return\n Logging.handle_message(logger.fallback, level, message, _module, group, id, file, line; kwargs...)\nend\n\n# A Turing model file may declare the AD backend it needs by exporting, e.g.,\n# `const MCMC_DEFAULTS = (; adtype = "mooncake")`. A spec or flag adtype wins;\n# the model default fills in only when the request leaves adtype unset.\nfunction apply_model_defaults(sampler, mod)\n haskey(sampler, "adtype") && return sampler\n # Only the gradient samplers take an AD backend.\n get(sampler, "algorithm", "NUTS") in ("NUTS", "HMC", "HMCDA", "Gibbs", "External") ||\n return sampler\n Base.invokelatest(isdefined, mod, :MCMC_DEFAULTS) || return sampler\n defaults = Base.invokelatest(getfield, mod, :MCMC_DEFAULTS)\n hasproperty(defaults, :adtype) || return sampler\n merged = copy(sampler)\n merged["adtype"] = String(defaults.adtype)\n return merged\nend\n\nfunction build_adtype(name)\n name == "forwarddiff" && return Turing.ADTypes.AutoForwardDiff()\n name == "reversediff" && return Turing.ADTypes.AutoReverseDiff()\n name == "mooncake" && return Turing.ADTypes.AutoMooncake(; config = nothing)\n error("unsupported adtype: $name")\nend\n\nfunction build_sampler(sampler, backend, modelmod = nothing)\n algorithm = get(sampler, "algorithm", "NUTS")\n # Prior draws are iid: no warmup, no adaptation. The JuliaBUGS path samples\n # ancestrally (sample_bugs_prior) instead of going through a sampler object.\n algorithm == "Prior" && return Turing.Prior(), 0\n warmup = Int(get(sampler, "warmup", 1000))\n adapt_delta = Float64(get(sampler, "adapt_delta", 0.8))\n if backend == "juliabugs"\n algorithm == "NUTS" || error("the juliabugs backend supports NUTS and Prior only")\n return AdvancedHMC.NUTS(adapt_delta), warmup\n end\n algorithm == "MH" && return Turing.MH(), warmup\n algorithm == "ESS" && return Turing.ESS(), warmup\n algorithm == "SMC" && return Turing.SMC(), warmup\n algorithm == "PG" && return Turing.PG(Int(sampler["particles"])), warmup\n adkw = haskey(sampler, "adtype") ? (; adtype = build_adtype(sampler["adtype"])) : (;)\n algorithm == "NUTS" && return Turing.NUTS(warmup, adapt_delta; adkw...), warmup\n algorithm == "HMC" &&\n return Turing.HMC(Float64(sampler["step_size"]), Int(sampler["leapfrog_steps"]); adkw...),\n warmup\n algorithm == "HMCDA" &&\n return Turing.HMCDA(warmup, adapt_delta, Float64(sampler["lambda"]); adkw...), warmup\n algorithm == "Gibbs" && return build_gibbs(sampler, adkw, warmup), warmup\n if algorithm == "External"\n modelmod === nothing && error("the External algorithm applies to Turing models only")\n Base.invokelatest(isdefined, modelmod, :MCMC_SAMPLER) ||\n error("algorithm External needs the model file to define MCMC_SAMPLER")\n ext = Base.invokelatest(getfield, modelmod, :MCMC_SAMPLER)\n return Turing.externalsampler(ext; adkw...), warmup\n end\n error("unsupported sampler algorithm: $algorithm")\nend\n\n# One Gibbs component: the block\'s variables get the block\'s sampler. A single\n# variable keys by symbol, several by tuple, matching Turing\'s constructor.\nfunction block_sampler(block, adkw, warmup)\n algorithm = get(block, "algorithm", "NUTS")\n adapt_delta = Float64(get(block, "adapt_delta", 0.8))\n algorithm == "MH" && return Turing.MH()\n algorithm == "ESS" && return Turing.ESS()\n algorithm == "PG" && return Turing.PG(Int(block["particles"]))\n algorithm == "NUTS" && return Turing.NUTS(warmup, adapt_delta; adkw...)\n algorithm == "HMC" &&\n return Turing.HMC(Float64(block["step_size"]), Int(block["leapfrog_steps"]); adkw...)\n algorithm == "HMCDA" &&\n return Turing.HMCDA(warmup, adapt_delta, Float64(block["lambda"]); adkw...)\n error("unsupported Gibbs block algorithm: $algorithm")\nend\n\nfunction build_gibbs(sampler, adkw, warmup)\n pairs = map(sampler["blocks"]) do block\n vars = Symbol.(block["variables"])\n key = length(vars) == 1 ? vars[1] : Tuple(vars)\n key => block_sampler(block, adkw, warmup)\n end\n return Turing.Gibbs(pairs...)\nend\n\n# Extra keyword arguments for AbstractMCMC.sample, from the request\'s sampler\n# table: thinning, burn-in for the non-adaptive samplers (NUTS and HMCDA discard\n# their own adaptation), and named starting values replicated across chains.\nfunction sampling_kwargs(sampler, warmup, chains)\n kw = (;)\n thin = Int(get(sampler, "thin", 1))\n thin > 1 && (kw = merge(kw, (; thinning = thin)))\n algorithm = get(sampler, "algorithm", "NUTS")\n if algorithm in ("MH", "HMC", "ESS", "PG", "Gibbs", "External") && warmup > 0\n kw = merge(kw, (; discard_initial = warmup))\n end\n # AdvancedHMC-style external samplers adapt only when told how many steps to\n # use; without n_adapts a chain can freeze at its initial point.\n if algorithm == "External" && warmup > 0\n kw = merge(kw, (; n_adapts = warmup))\n end\n # NUTS/HMCDA blocks inside Gibbs adapt only through the sample-level nadapts\n # keyword (the constructor\'s count is ignored there); without it the block\n # never tunes its step size and can freeze.\n if algorithm == "Gibbs" && warmup > 0\n blocks = get(sampler, "blocks", Any[])\n if any(get(b, "algorithm", "NUTS") in ("NUTS", "HMCDA") for b in blocks)\n kw = merge(kw, (; nadapts = warmup))\n end\n end\n if haskey(sampler, "initial_params")\n nt = (; (Symbol(k) => narrow(v) for (k, v) in sampler["initial_params"])...)\n strategy = Turing.DynamicPPL.InitFromParams(nt)\n kw = merge(kw, (; initial_params = fill(strategy, chains)))\n end\n return kw\nend\n\nto_namedtuple(data) = (; (Symbol(k) => v for (k, v) in data)...)\n\n# Binds the data so a model can read a variable as a property (`data.y`) or by\n# index (`data["y"]` / `data[:y]`), with `haskey`/`keys` supported, so models\n# written in either idiom run unchanged. The underlying NamedTuple is reached\n# via getfield to avoid colliding with a data variable also named `nt`.\nstruct ModelData\n nt::NamedTuple\nend\nBase.getproperty(d::ModelData, k::Symbol) = getproperty(getfield(d, :nt), k)\nBase.getindex(d::ModelData, k::Symbol) = getproperty(getfield(d, :nt), k)\nBase.getindex(d::ModelData, k::AbstractString) = getproperty(getfield(d, :nt), Symbol(k))\nBase.haskey(d::ModelData, k::Symbol) = haskey(getfield(d, :nt), k)\nBase.haskey(d::ModelData, k::AbstractString) = haskey(getfield(d, :nt), Symbol(k))\nBase.keys(d::ModelData) = keys(getfield(d, :nt))\nBase.propertynames(d::ModelData) = propertynames(getfield(d, :nt))\n\n# JuliaBUGS requires dense arrays with a concrete numeric eltype, but JSON parses\n# them as Vector{Any} (and nested arrays as vectors of vectors). narrow promotes a\n# numeric array to a concrete eltype and stacks equal-sized nested arrays into a\n# dense array; an empty array becomes Float64[].\nfunction narrow(v::AbstractVector)\n isempty(v) && return Float64[]\n elems = [narrow(x) for x in v]\n if all(e -> e isa AbstractArray, elems) && allequal(size.(elems))\n return stack(elems; dims = 1)\n end\n return eltype(elems) <: Real && !isconcretetype(eltype(elems)) ? float.(elems) : elems\nend\nnarrow(x) = x\nbugs_namedtuple(data) = (; (Symbol(k) => narrow(v) for (k, v) in data)...)\n\n# JSON null arrives as `nothing`; map it to `missing` so a blanked outcome becomes\n# a sampling (predictive) statement in the model.\nto_missing(x) = x === nothing ? missing : (x isa AbstractVector ? map(to_missing, x) : x)\npredict_namedtuple(data) = (; (Symbol(k) => to_missing(v) for (k, v) in data)...)\n\n# A blanked target compiles to a latent node; JuliaBUGS drops scalar missings.\nbugs_predict_namedtuple(data) = (; (Symbol(k) => narrow(to_missing(v)) for (k, v) in data)...)\n\n# Rebuild a posterior VNChain (latents only) from our samples wire so it can feed\n# Turing\'s predict. Scalar leaves are regrouped into their array-valued VarName\n# (theta[1..8] -> @varname(theta) holding an 8-vector), so predict matches the\n# model\'s parameters exactly instead of relying on leaf reconstruction. Target\n# outcome columns are excluded.\nfunction wire_to_vnchain(wire, targets)\n sz = wire["size"]\n nIter, total, nChains = Int(sz[1]), Int(sz[2]), Int(sz[3])\n flat = wire["value_flat"]\n index = Dict(n => i for (i, n) in enumerate(wire["parameters"]))\n is_target(n) = any(t -> n == t || startswith(n, t * "["), targets)\n keep = [n for n in wire["name_map"]["parameters"] if !is_target(n)]\n cell(name, i, c) = begin\n p = index[name]\n v = flat[i + (p - 1) * nIter + (c - 1) * nIter * total]\n v === nothing ? NaN : Float64(v)\n end\n base_of(n) = (b = findfirst(\'[\', n); b === nothing ? n : n[1:prevind(n, b)])\n idx_of(n) = begin\n b = findfirst(\'[\', n)\n b === nothing && return Int[]\n inner = n[nextind(n, b):prevind(n, findlast(\']\', n))]\n parse.(Int, split(inner, \',\'))\n end\n groups = Dict{String,Vector{String}}()\n for n in keep\n push!(get!(groups, base_of(n), String[]), n)\n end\n dict = Dict{FlexiChains.ParameterOrExtra{<:VarName},Array}()\n for (base, names) in groups\n vn = eval(:(Turing.@varname($(Meta.parse(base)))))\n if length(names) == 1 && isempty(idx_of(names[1]))\n m = Matrix{Float64}(undef, nIter, nChains)\n for c in 1:nChains, i in 1:nIter\n m[i, c] = cell(names[1], i, c)\n end\n dict[FlexiChains.Parameter(vn)] = m\n else\n idxs = [idx_of(n) for n in names]\n D = length(idxs[1])\n dims = ntuple(d -> maximum(ix[d] for ix in idxs), D)\n m = Matrix{Array{Float64,D}}(undef, nIter, nChains)\n for c in 1:nChains, i in 1:nIter\n a = Array{Float64,D}(undef, dims...)\n for (n, ix) in zip(names, idxs)\n a[ix...] = cell(n, i, c)\n end\n m[i, c] = a\n end\n dict[FlexiChains.Parameter(vn)] = m\n end\n end\n return FlexiChains.FlexiChain{VarName}(nIter, nChains, dict)\nend\n\n# Expand one sampler transition to canonical scalar leaves (theta -> theta[1], ...),\n# the same names the final samples file uses, so streamed batches reconstruct it.\n# Sampler statistics (acceptance rate, tree depth, ...) ride along under the same\n# names the samples file records as internals, so consumers get per-draw\n# diagnostics without a second channel; Bool stats become 0/1.\nfunction flatten_draw(transition)\n out = Pair{String,Float64}[]\n for (vn, val) in pairs(transition.params)\n for (leaf, leafval) in Turing.DynamicPPL.varname_and_value_leaves(vn, val)\n push!(out, string(leaf) => Float64(leafval))\n end\n end\n if hasproperty(transition, :stats)\n for (name, value) in pairs(transition.stats)\n value isa Real && push!(out, string(name) => Float64(value))\n end\n end\n return out\nend\n\n# A per-draw callback that emits {"mcmcjs":"draws",...} batches on PROGRESS_IO as\n# sampling proceeds. AbstractMCMC passes the 1-based chain index as `chain_number`;\n# each batch carries a per-chain monotonic seq, and a chain\'s batches concatenate\n# (by leaf name) to the final samples file. Assumes the callback is not invoked\n# concurrently across chains (true for the MCMCSerial path build_and_sample uses).\nfunction draw_streamer(draws_per_chain::Int, batch_size::Int)\n chain = Ref(-1)\n seq = Ref(0)\n names = String[]\n buffer = Dict{String,Vector{Float64}}()\n filled = Ref(0)\n function emit(iteration)\n filled[] == 0 && return\n cols = Dict{String,Vector{Float64}}(n => copy(buffer[n]) for n in names)\n println(\n PROGRESS_IO[],\n JSON.json(\n Dict(\n "mcmcjs" => "draws",\n "chain" => chain[],\n "seq" => seq[],\n "iteration" => iteration,\n "draws" => cols,\n ),\n ),\n )\n flush(PROGRESS_IO[])\n seq[] += 1\n for n in names\n empty!(buffer[n])\n end\n filled[] = 0\n end\n return function (_rng, _model, _sampler, transition, _state, iteration; chain_number = 1, _kwargs...)\n c = Int(chain_number) - 1\n if c != chain[]\n chain[] = c\n seq[] = 0\n end\n leaves = flatten_draw(transition)\n if isempty(names)\n for (n, _) in leaves\n push!(names, n)\n buffer[n] = Float64[]\n end\n end\n for (n, v) in leaves\n push!(get!(buffer, n, Float64[]), v)\n end\n filled[] += 1\n if filled[] >= batch_size || iteration >= draws_per_chain\n emit(iteration)\n end\n end\nend\n\n# Turing observes a variable only when its name is a model argument. A dict-reading\n# model (`y = data["y"]; y[i] ~ dist`) would otherwise SAMPLE its outcome instead of\n# observing it, so condition the built model on the data columns to turn each such\n# `~` into an observation. Columns that are already model arguments are skipped: they\n# are observed by construction, and conditioning one that is also an argument errors.\n# Do not probe the model to find latent columns (e.g. via VarInfo): evaluating a\n# dict-reading model assigns prior draws into the array the data is read from,\n# corrupting it before we condition. Predictor columns carry no `~`, so conditioning\n# on them is a harmless no-op.\nfunction condition_on_data(model, data)\n nt = data isa ModelData ? getfield(data, :nt) : data\n nt isa NamedTuple || return model\n argnames = keys(model.args)\n pairs = [k => getproperty(nt, k) for k in keys(nt) if Base.isidentifier(string(k)) && !(k in argnames)]\n isempty(pairs) && return model\n return Turing.DynamicPPL.condition(model, (; pairs...))\nend\n\n# Build the model and sample in one call so both run in the latest world age:\n# the model methods are defined by `include` at runtime, so a plain call from\n# this (older) world would fail with "method too new". invokelatest fixes that.\n# Returns Turing\'s default chain type, a FlexiChain. With a callback, draws stream.\nfunction build_and_sample(\n entry, data, sampler, draws, chains, rng; callback = nothing, extra = (;), parallel = "serial"\n)\n model = condition_on_data(entry(data), data)\n kw = callback === nothing ? extra : merge(extra, (; callback))\n ensemble = parallel == "threads" ? MCMCThreads() :\n parallel == "distributed" ? MCMCDistributed() : MCMCSerial()\n return Logging.with_logger(JSONProgressLogger()) do\n sample(rng, model, sampler, ensemble, draws, chains; progress = true, kw...)\n end\nend\n\n# Distributed chains need the model\'s definitions on every process: workers get\n# this file (ModelData and friends), then all processes include the model file\n# into Main so the serialized model\'s references resolve identically everywhere.\nfunction setup_distributed(chains, model_file)\n missing_workers = chains - Distributed.nworkers()\n if Distributed.nprocs() == 1 || missing_workers > 0\n Distributed.addprocs(\n Distributed.nprocs() == 1 ? chains : missing_workers;\n exeflags = ["--project=$(Base.active_project())", "--startup-file=no"],\n )\n Distributed.remotecall_eval(\n Main, Distributed.workers(), :(Base.include(Main, $FITLIB_FILE))\n )\n end\n Distributed.remotecall_eval(Main, Distributed.procs(), :(Base.include(Main, $model_file)))\nend\n\n# FlexiChains-native wire writer. DimArray(chn) splits array-valued parameters\n# into scalar leaves (theta -> theta[1], theta[2]) in the (iter, chain, param)\n# orientation; Real-valued extras become the internals section.\nfunction vnchain_to_wire(chn)\n da = DimensionalData.DimArray(chn)\n pnames = string.(collect(DimensionalData.lookup(da, :param)))\n arr = parent(da)\n nIter, nChains, nParams = size(arr)\n\n extras = [e for e in FlexiChains.extras(chn) if eltype(chn[e]) <: Union{Missing,Real}]\n enames = [string(Symbol(e)) for e in extras]\n total = nParams + length(extras)\n\n flat = Vector{Union{Float64,Nothing}}(undef, nIter * total * nChains)\n # JSON has no Inf/NaN; a non-finite draw (e.g. 1/sqrt(tau) under a diffuse\n # prior) becomes null, which the samples parser reads back as NaN.\n cell(v) = v === missing || !isfinite(v) ? nothing : Float64(v)\n for c in 1:nChains, p in 1:nParams, i in 1:nIter\n flat[i + (p - 1) * nIter + (c - 1) * nIter * total] = cell(arr[i, c, p])\n end\n for (k, e) in enumerate(extras)\n m = chn[e]\n p = nParams + k\n for c in 1:nChains, i in 1:nIter\n flat[i + (p - 1) * nIter + (c - 1) * nIter * total] = cell(m[i, c])\n end\n end\n\n return Dict(\n "size" => [nIter, total, nChains],\n "value_flat" => flat,\n "parameters" => vcat(pnames, enames),\n "name_map" => Dict("parameters" => pnames, "internals" => enames),\n )\nend\n\n# JuliaBUGS compiles the model at runtime, so building and sampling must run in\n# separate latest-world frames; merging them reintroduces a world-age error.\n# Returns a FlexiChain like the Turing path; gen_chains recovers generated\n# quantities (unobserved nodes with no observed descendants) after sampling.\n# With a callback, draws stream (see bugs_draw_streamer).\nfunction sample_bugs(\n model, sampler, warmup, draws, chains, rng;\n callback = nothing, thin = 1, threads = false,\n)\n kw = callback === nothing ? (;) : (; callback)\n thin > 1 && (kw = merge(kw, (; thinning = thin)))\n ensemble = threads ? JuliaBUGS.AbstractMCMC.MCMCThreads() : JuliaBUGS.AbstractMCMC.MCMCSerial()\n return Logging.with_logger(JSONProgressLogger()) do\n JuliaBUGS.AbstractMCMC.sample(\n rng, model, sampler, ensemble, draws, chains;\n chain_type = FlexiChains.VNChain, n_adapts = warmup, discard_initial = warmup,\n progress = true, kw...,\n )\n end\nend\n\n# JuliaBUGS prior sampling: each draw is one ancestral pass (evaluate!! with an\n# rng samples every unobserved stochastic node from its prior and recomputes the\n# deterministic ones; observed data stays fixed). The collected variables are the\n# model parameters plus generated quantities, the same columns a posterior fit\n# produces through gen_chains.\nfunction sample_bugs_prior(model, draws, chains, rng)\n model isa JuliaBUGS.BUGSModelWithGradient && (model = model.base_model)\n APPL = JuliaBUGS.AbstractPPL\n vars = vcat(JuliaBUGS.model_parameters(model), JuliaBUGS.generated_quantities(model))\n isempty(vars) && error("the model has no parameters or generated quantities to sample")\n grab(env, vn) = (v = APPL.getvalue(env, vn); v isa AbstractArray ? copy(v) : v)\n columns = Dict(vn => Vector{Any}(undef, draws * chains) for vn in vars)\n for c in 1:chains, i in 1:draws\n env, _ = APPL.evaluate!!(rng, model)\n for vn in vars\n columns[vn][i + (c - 1) * draws] = grab(env, vn)\n end\n end\n dict = Dict{FlexiChains.ParameterOrExtra{<:VarName},Array}(\n FlexiChains.Parameter(vn) =>\n [columns[vn][i + (c - 1) * draws] for i in 1:draws, c in 1:chains] for vn in vars\n )\n return FlexiChains.FlexiChain{VarName}(draws, chains, dict)\nend\n\n# The JuliaBUGS counterpart to draw_streamer. A JuliaBUGS transition is a raw\n# AdvancedHMC.Transition whose params are an unconstrained vector, so (unlike the\n# Turing path) draws cannot be read off it directly. Per batch we rebuild a small\n# FlexiChain through the same gen_chains + vnchain_to_wire path the final file\n# uses, so the streamed leaf names (parameters, generated quantities, and sampler\n# stats) match the file exactly. Reconstruction runs on a copy of the model so it\n# never perturbs the sampler\'s state. AbstractMCMC passes the 1-based chain index\n# as chain_number; each chain\'s batches carry a per-chain monotonic seq.\n# TODO: once the pinned JuliaBUGS carries TuringLang/JuliaBUGS.jl#517 (with\n# AbstractMCMC#212 and AbstractPPL#178), a transition exposes named constrained\n# params (a VarNamedTuple) plus generated quantities, so this collapses to a\n# per-draw flatten like draw_streamer, dropping the deepcopy and reconstruction.\nfunction bugs_draw_streamer(model, draws_per_chain::Int, batch_size::Int)\n recon = deepcopy(model)\n side_rng = StableRNG(0)\n chain = Ref(-1)\n seq = Ref(0)\n \u03B8s = Vector{Vector{Float64}}()\n lps = Float64[]\n stats = Any[]\n function emit(iteration)\n isempty(\u03B8s) && return\n stats_names = collect(keys(merge((; lp = lps[1]), stats[1])))\n stats_values = [vcat(lps[i], collect(values(stats[i]))) for i in eachindex(\u03B8s)]\n chn = JuliaBUGS.gen_chains(FlexiChains.VNChain, recon, \u03B8s, stats_names, stats_values; rng = side_rng)\n wire = vnchain_to_wire(chn)\n nIter, total, _ = wire["size"]\n flat = wire["value_flat"]\n params = wire["parameters"]\n cols = Dict(params[p] => [flat[i + (p - 1) * nIter] for i in 1:nIter] for p in 1:total)\n println(\n PROGRESS_IO[],\n JSON.json(\n Dict(\n "mcmcjs" => "draws",\n "chain" => chain[],\n "seq" => seq[],\n "iteration" => iteration,\n "draws" => cols,\n ),\n ),\n )\n flush(PROGRESS_IO[])\n seq[] += 1\n empty!(\u03B8s)\n empty!(lps)\n empty!(stats)\n end\n return function (_rng, _model, _sampler, transition, _state, iteration; chain_number = 1, _kwargs...)\n c = Int(chain_number) - 1\n if c != chain[]\n chain[] = c\n seq[] = 0\n empty!(\u03B8s)\n empty!(lps)\n empty!(stats)\n end\n push!(\u03B8s, copy(transition.z.\u03B8))\n push!(lps, transition.z.\u2113\u03C0.value)\n push!(stats, AdvancedHMC.stat(transition))\n if length(\u03B8s) >= batch_size || iteration >= draws_per_chain\n emit(iteration)\n end\n end\nend\n\n# JuliaBUGS pointwise log-likelihood: restore each posterior draw into the\n# evaluation environment, recompute the deterministic nodes in topological\n# order, and record logpdf per observed node. Every unobserved stochastic node\n# must be covered by the posterior columns, or log p(y | theta) would not be a\n# function of the draw.\nfunction loglik_bugs(model, posterior)\n model isa JuliaBUGS.BUGSModelWithGradient && (model = model.base_model)\n APPL = JuliaBUGS.AbstractPPL\n gd = model.graph_evaluation_data\n\n sz = posterior["size"]\n nIter, nCols, nChains = Int(sz[1]), Int(sz[2]), Int(sz[3])\n flat = posterior["value_flat"]\n col = Dict(n => i for (i, n) in enumerate(posterior["parameters"]))\n posterior_names = Set(posterior["name_map"]["parameters"])\n cell(i, p, c) = begin\n v = flat[i + (p - 1) * nIter + (c - 1) * nIter * nCols]\n v === nothing ? NaN : Float64(v)\n end\n\n restore = Tuple{APPL.VarName,Int}[]\n for vn in JuliaBUGS.model_parameters(model)\n leaves = collect(APPL.varname_leaves(vn, APPL.getvalue(model.evaluation_env, vn)))\n found = count(l -> string(l) in posterior_names, leaves)\n found == length(leaves) ||\n error("the posterior samples do not cover $(vn); were they produced by fitting this spec?")\n append!(restore, [(l, col[string(l)]) for l in leaves])\n end\n observed = [\n (vn, i) for (i, vn) in enumerate(gd.sorted_nodes) if\n gd.is_stochastic_vals[i] && gd.is_observed_vals[i]\n ]\n isempty(observed) && error("the model has no observed variables to compute a log-likelihood for")\n\n pnames = string.(first.(observed))\n n = length(pnames)\n flat_out = Vector{Union{Float64,Nothing}}(undef, nIter * n * nChains)\n for c in 1:nChains, i in 1:nIter\n env = model.evaluation_env\n for (leaf, p) in restore\n env = JuliaBUGS.BangBang.setindex!!(env, cell(i, p, c), leaf)\n end\n for (k, node) in enumerate(gd.sorted_nodes)\n if !gd.is_stochastic_vals[k]\n env = JuliaBUGS.BangBang.setindex!!(\n env, gd.node_function_vals[k](env, gd.loop_vars_vals[k]), node,\n )\n end\n end\n for (k, (vn, idx)) in enumerate(observed)\n dist = gd.node_function_vals[idx](env, gd.loop_vars_vals[idx])\n v = logpdf(dist, APPL.getvalue(env, vn))\n flat_out[i + (k - 1) * nIter + (c - 1) * nIter * n] = isfinite(v) ? Float64(v) : nothing\n end\n end\n return Dict(\n "size" => [nIter, n, nChains],\n "value_flat" => flat_out,\n "parameters" => pnames,\n "name_map" => Dict("parameters" => pnames, "internals" => String[]),\n )\nend\n\n# JuliaBUGS posterior prediction: condition the (target-blanked) model on the\n# posterior parameter columns, then evaluate!! ancestral-samples the remaining\n# latents once per posterior draw. No sampler or gradient runs.\nfunction predict_bugs(model, posterior, targets, rng)\n model isa JuliaBUGS.BUGSModelWithGradient && (model = model.base_model)\n APPL = JuliaBUGS.AbstractPPL\n target_syms = Set(Symbol.(targets))\n is_target(vn) = APPL.getsym(vn) in target_syms\n\n sz = posterior["size"]\n nIter, nCols, nChains = Int(sz[1]), Int(sz[2]), Int(sz[3])\n flat = posterior["value_flat"]\n col = Dict(n => i for (i, n) in enumerate(posterior["parameters"]))\n posterior_names = Set(posterior["name_map"]["parameters"])\n cell(i, p, c) = begin\n v = flat[i + (p - 1) * nIter + (c - 1) * nIter * nCols]\n v === nothing ? NaN : Float64(v)\n end\n\n # Nodes fully covered by posterior columns are conditioned; anything\n # uncovered stays latent and is forward-sampled, like Turing.predict.\n gd = model.graph_evaluation_data\n conditioned = APPL.VarName[]\n restore = Tuple{APPL.VarName,Int}[]\n for (i, vn) in enumerate(gd.sorted_nodes)\n (gd.is_stochastic_vals[i] && !gd.is_observed_vals[i] && !is_target(vn)) || continue\n leaves = collect(APPL.varname_leaves(vn, APPL.getvalue(model.evaluation_env, vn)))\n found = count(l -> string(l) in posterior_names, leaves)\n if found == length(leaves)\n push!(conditioned, vn)\n append!(restore, [(l, col[string(l)]) for l in leaves])\n elseif found > 0\n error("the posterior samples cover $(vn) only partially; refit before predicting")\n end\n end\n isempty(conditioned) &&\n error("the posterior samples share no parameters with the model; were they produced by fitting this spec?")\n cond = APPL.condition(model, conditioned)\n\n any(is_target, cond.graph_evaluation_data.sorted_nodes) ||\n error("no variables predicted; check that [predict].targets name model variables")\n\n out_leaves = APPL.VarName[]\n arr = Array{Float64,3}(undef, 0, 0, 0)\n for c in 1:nChains, i in 1:nIter\n env = cond.evaluation_env\n for (leaf, p) in restore\n env = JuliaBUGS.BangBang.setindex!!(env, cell(i, p, c), leaf)\n end\n cond = JuliaBUGS.BangBang.setproperty!!(cond, :evaluation_env, env)\n drawn, _ = APPL.evaluate!!(rng, cond)\n if isempty(out_leaves)\n out_leaves = [\n l for vn in cond.graph_evaluation_data.sorted_nodes if is_target(vn)\n for l in APPL.varname_leaves(vn, APPL.getvalue(drawn, vn))\n ]\n arr = Array{Float64,3}(undef, nIter, length(out_leaves), nChains)\n end\n for (k, leaf) in enumerate(out_leaves)\n arr[i, k, c] = Float64(APPL.getvalue(drawn, leaf))\n end\n end\n\n pnames = string.(out_leaves)\n n = length(pnames)\n flat_out = Vector{Union{Float64,Nothing}}(undef, nIter * n * nChains)\n for c in 1:nChains, p in 1:n, i in 1:nIter\n v = arr[i, p, c]\n flat_out[i + (p - 1) * nIter + (c - 1) * nIter * n] = isfinite(v) ? v : nothing\n end\n return Dict(\n "size" => [nIter, n, nChains],\n "value_flat" => flat_out,\n "parameters" => pnames,\n "name_map" => Dict("parameters" => pnames, "internals" => String[]),\n )\nend\n\nfunction provenance()\n packages = Dict{String,String}()\n for (_, info) in Pkg.dependencies()\n if info.name in\n ("Turing", "FlexiChains", "DynamicPPL", "AbstractMCMC", "JuliaBUGS", "AdvancedHMC", "ForwardDiff", "Mooncake", "ADTypes") &&\n info.version !== nothing\n packages[info.name] = string(info.version)\n end\n end\n manifest = joinpath(dirname(Base.active_project()), "Manifest.toml")\n return Dict(\n "julia_version" => string(VERSION),\n "packages" => packages,\n "manifest_sha256" => isfile(manifest) ? bytes2hex(sha256(read(manifest))) : "",\n )\nend\n\n# Resolve the model entry function: use the requested name, falling back to the\n# conventional build_model. This lets a request leave the entry implicit, or name a\n# custom entry that a given model file does not define (then build_model is used).\n# Load the user\'s model file into a throwaway module. Isolation keeps repeated\n# requests in the persistent worker from colliding on names (e.g. two models each\n# defining `const model_def`), and confines the model\'s globals to their own scope.\nfunction load_model_module(path)\n mod = Module(gensym(:UserModel))\n Base.include(mod, abspath(path))\n return mod\nend\n\nfunction resolve_entry(mod, requested)\n for name in (requested, "build_model")\n name === nothing && continue\n sym = Symbol(name)\n # The model was just include\'d, so its bindings live in a newer world than\n # this frame; resolve them in the latest world to avoid a Julia 1.12\n # world-age warning on the access.\n Base.invokelatest(isdefined, mod, sym) && return Base.invokelatest(getfield, mod, sym)\n end\n error("model file defines no entry function (looked for $(requested) and build_model)")\nend\n\n# Runs one request end to end. Returns {"ok": true, "provenance": ...} or\n# {"ok": false, "error": ..., "stage": ...}; never throws.\nfunction handle_request(request)\n out = request["out"]\n mode = get(request, "mode", "fit")\n backend = get(get(request, "backend", Dict()), "id", "turing")\n stage = "compile"\n try\n Random.seed!(Int(request["seed"]))\n rng = StableRNG(Int(request["seed"]))\n modelmod = load_model_module(request["model"]["file"])\n entry = resolve_entry(modelmod, get(request["model"], "entry", nothing))\n\n wire = if mode == "loglik"\n if backend == "juliabugs"\n model = Base.invokelatest(entry, bugs_namedtuple(request["data"]))\n stage = "load_samples"\n posterior = JSON.parsefile(request["samples"])\n stage = "loglik"\n Base.invokelatest(loglik_bugs, model, posterior)\n else\n data = ModelData(to_namedtuple(request["data"]))\n model = Base.invokelatest(entry, data)\n model = Base.invokelatest(condition_on_data, model, data)\n stage = "load_samples"\n chn = wire_to_vnchain(JSON.parsefile(request["samples"]), String[])\n stage = "loglik"\n pll = Base.invokelatest(Turing.DynamicPPL.pointwise_loglikelihoods, model, chn)\n isempty(FlexiChains.parameters(pll)) &&\n error("the model has no observed variables to compute a log-likelihood for")\n vnchain_to_wire(pll)\n end\n elseif mode == "predict"\n if backend == "juliabugs"\n model = Base.invokelatest(entry, bugs_predict_namedtuple(request["data"]))\n stage = "load_samples"\n posterior = JSON.parsefile(request["samples"])\n stage = "predict"\n Base.invokelatest(predict_bugs, model, posterior, request["predict"]["targets"], rng)\n else\n model = Base.invokelatest(entry, ModelData(predict_namedtuple(request["data"])))\n stage = "load_samples"\n rchn = wire_to_vnchain(JSON.parsefile(request["samples"]), request["predict"]["targets"])\n stage = "predict"\n pp = Base.invokelatest(predict, rng, model, rchn; include_all = false)\n isempty(FlexiChains.parameters(pp)) &&\n error("no variables predicted; check that [predict].targets name unconditioned outcomes")\n vnchain_to_wire(pp)\n end\n else\n data = backend == "juliabugs" ? bugs_namedtuple(request["data"]) : ModelData(to_namedtuple(request["data"]))\n parallel = get(request["sampler"], "parallel", "serial")\n chains = Int(get(request["sampler"], "chains", 4))\n if parallel == "distributed" && backend != "juliabugs"\n # Every process needs the model\'s definitions under the same\n # names; the module-per-request isolation gives way to Main.\n stage = "distribute"\n Base.invokelatest(setup_distributed, chains, request["model"]["file"])\n modelmod = Main\n entry = resolve_entry(Main, get(request["model"], "entry", nothing))\n end\n sampler_conf = backend == "juliabugs" ? request["sampler"] :\n apply_model_defaults(request["sampler"], modelmod)\n sampler, warmup = build_sampler(sampler_conf, backend, modelmod)\n draws = Int(request["sampler"]["draws"])\n stage = "sample"\n if backend == "juliabugs"\n model = Base.invokelatest(entry, data)\n chn = if get(request["sampler"], "algorithm", "NUTS") == "Prior"\n Base.invokelatest(sample_bugs_prior, model, draws, chains, rng)\n else\n # Reconstruction reads the plain BUGSModel; entry may return a gradient wrapper.\n base = hasproperty(model, :base_model) ? model.base_model : model\n threads = get(request["sampler"], "parallel", "serial") == "threads"\n cb = get(request, "stream_draws", false) && !threads ?\n bugs_draw_streamer(base, draws, Int(get(request, "draw_batch_size", 25))) : nothing\n Base.invokelatest(\n sample_bugs, model, sampler, warmup, draws, chains, rng;\n callback = cb, thin = Int(get(request["sampler"], "thin", 1)), threads,\n )\n end\n vnchain_to_wire(chn)\n else\n # The draw streamer assumes chains arrive one at a time; with\n # concurrent chains the caller must not request streaming.\n cb = get(request, "stream_draws", false) && parallel == "serial" ?\n draw_streamer(draws, Int(get(request, "draw_batch_size", 25))) : nothing\n extra = sampling_kwargs(request["sampler"], warmup, chains)\n chn = Base.invokelatest(\n build_and_sample, entry, data, sampler, draws, chains, rng;\n callback = cb, extra, parallel,\n )\n vnchain_to_wire(chn)\n end\n end\n\n stage = "write"\n tmp = out * ".tmp"\n open(tmp, "w") do io\n JSON.print(io, wire)\n end\n mv(tmp, out; force = true)\n\n return Dict("ok" => true, "provenance" => provenance())\n catch err\n return Dict("ok" => false, "error" => sprint(showerror, err), "stage" => stage)\n end\nend\n',
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"julia-env/Project.toml": '[deps]\nAdvancedHMC = "0bf59076-c3b1-5ca4-86bd-e02cd72cde3d"\nDimensionalData = "0703355e-b756-11e9-17c0-8b28908087d0"\nFlexiChains = "4a37a8b9-6e57-4b92-8664-298d46e639f7"\nForwardDiff = "f6369f11-7733-5829-9624-2563aa707210"\nJSON = "682c06a0-de6a-54ab-a142-c8b1cf79cde6"\nJuliaBUGS = "ba9fb4c0-828e-4473-b6a1-cd2560fee5bf"\nMooncake = "da2b9cff-9c12-43a0-ae48-6db2b0edb7d6"\nReverseDiff = "37e2e3b7-166d-5795-8a7a-e32c996b4267"\nStableRNGs = "860ef19b-820b-49d6-a774-d7a799459cd3"\nStatsFuns = "4c63d2b9-4356-54db-8cca-17b64c39e42c"\nTuring = "fce5fe82-541a-59a6-adf8-730c64b5f9a0"\n',
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"julia-env/Manifest.toml": '# This file is machine-generated - editing it directly is not advised\n\njulia_version = "1.12.6"\nmanifest_format = "2.0"\nproject_hash = "107dec61506731779d20c005b15eedf7e04a2df6"\n\n[[deps.ADTypes]]\ngit-tree-sha1 = "ec6be48a85c93d995563b84bff8a86bc98df45ce"\nuuid = "47edcb42-4c32-4615-8424-f2b9edc5f35b"\nversion = "1.22.2"\n\n [deps.ADTypes.extensions]\n ADTypesChainRulesCoreExt = "ChainRulesCore"\n ADTypesConstructionBaseExt = "ConstructionBase"\n ADTypesEnzymeCoreExt = "EnzymeCore"\n\n [deps.ADTypes.weakdeps]\n ChainRulesCore = "d360d2e6-b24c-11e9-a2a3-2a2ae2dbcce4"\n ConstructionBase = "187b0558-2788-49d3-abe0-74a17ed4e7c9"\n EnzymeCore = "f151be2c-9106-41f4-ab19-57ee4f262869"\n\n[[deps.ANSIColoredPrinters]]\ngit-tree-sha1 = "574baf8110975760d391c710b6341da1afa48d8c"\nuuid = "a4c015fc-c6ff-483c-b24f-f7ea428134e9"\nversion = "0.0.1"\n\n[[deps.AbstractFFTs]]\ndeps = ["LinearAlgebra"]\ngit-tree-sha1 = "d92ad398961a3ed262d8bf04a1a2b8340f915fef"\nuuid = "621f4979-c628-5d54-868e-fcf4e3e8185c"\nversion = "1.5.0"\nweakdeps = ["ChainRulesCore", "Test"]\n\n [deps.AbstractFFTs.extensions]\n AbstractFFTsChainRulesCoreExt = "ChainRulesCore"\n AbstractFFTsTestExt = "Test"\n\n[[deps.AbstractMCMC]]\ndeps = ["BangBang", "ConsoleProgressMonitor", "Dates", "Distributed", "LogDensityProblems", "Logging", "LoggingExtras", "ProgressLogging", "Random", "StatsBase", "TerminalLoggers", "UUIDs"]\ngit-tree-sha1 = "8ac6182431567907e0d5170bcac6dd48fa541f78"\nuuid = "80f14c24-f653-4e6a-9b94-39d6b0f70001"\nversion = "5.15.1"\n\n [deps.AbstractMCMC.extensions]\n AbstractMCMCOnlineStatsExt = "OnlineStats"\n AbstractMCMCTensorBoardLoggerExt = "TensorBoardLogger"\n\n [deps.AbstractMCMC.weakdeps]\n OnlineStats = "a15396b6-48d5-5d58-9928-6d29437db91e"\n TensorBoardLogger = "899adc3e-224a-11e9-021f-63837185c80f"\n\n[[deps.AbstractPPL]]\ndeps = ["ADTypes", "AbstractMCMC", "Accessors", "BangBang", "DensityInterface", "JSON", "LinearAlgebra", "MacroTools", 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"Libtask"\n\n[[deps.AdvancedVI]]\ndeps = ["ADTypes", "AbstractPPL", "Accessors", "ChainRulesCore", "DiffResults", "Distributions", "DocStringExtensions", "FillArrays", "Functors", "LinearAlgebra", "LogDensityProblems", "Optimisers", "ProgressMeter", "Random", "StatsBase"]\ngit-tree-sha1 = "fc42c29943eae508fd28ec620d1faa4d2c1ce044"\nuuid = "b5ca4192-6429-45e5-a2d9-87aec30a685c"\nversion = "0.7.0"\n\n [deps.AdvancedVI.extensions]\n AdvancedVIDynamicPPLExt = ["DynamicPPL", "Accessors", "Distributions", "LogDensityProblems"]\n AdvancedVIEnzymeExt = ["Enzyme", "ChainRulesCore"]\n AdvancedVIMooncakeExt = ["Mooncake", "ChainRulesCore"]\n AdvancedVIReverseDiffExt = ["ReverseDiff", "ChainRulesCore"]\n\n [deps.AdvancedVI.weakdeps]\n DynamicPPL = "366bfd00-2699-11ea-058f-f148b4cae6d8"\n Enzyme = "7da242da-08ed-463a-9acd-ee780be4f1d9"\n Mooncake = "da2b9cff-9c12-43a0-ae48-6db2b0edb7d6"\n ReverseDiff = "37e2e3b7-166d-5795-8a7a-e32c996b4267"\n\n[[deps.AliasTables]]\ndeps = ["PtrArrays", 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ArrayInterfaceCUDSSExt = ["CUDSS", "CUDA"]\n ArrayInterfaceChainRulesCoreExt = "ChainRulesCore"\n ArrayInterfaceChainRulesExt = "ChainRules"\n ArrayInterfaceFillArraysExt = "FillArrays"\n ArrayInterfaceGPUArraysCoreExt = "GPUArraysCore"\n ArrayInterfaceMetalExt = "Metal"\n ArrayInterfaceReverseDiffExt = "ReverseDiff"\n ArrayInterfaceSparseArraysExt = "SparseArrays"\n ArrayInterfaceStaticArraysCoreExt = "StaticArraysCore"\n ArrayInterfaceTrackerExt = "Tracker"\n\n [deps.ArrayInterface.weakdeps]\n AMDGPU = "21141c5a-9bdb-4563-92ae-f87d6854732e"\n BandedMatrices = "aae01518-5342-5314-be14-df237901396f"\n BlockBandedMatrices = "ffab5731-97b5-5995-9138-79e8c1846df0"\n CUDA = "052768ef-5323-5732-b1bb-66c8b64840ba"\n CUDSS = "45b445bb-4962-46a0-9369-b4df9d0f772e"\n ChainRules = "082447d4-558c-5d27-93f4-14fc19e9eca2"\n ChainRulesCore = "d360d2e6-b24c-11e9-a2a3-2a2ae2dbcce4"\n FillArrays = "1a297f60-69ca-5386-bcde-b61e274b549b"\n GPUArraysCore = "46192b85-c4d5-4398-a991-12ede77f4527"\n Metal = "dde4c033-4e86-420c-a63e-0dd931031962"\n ReverseDiff = "37e2e3b7-166d-5795-8a7a-e32c996b4267"\n SparseArrays = "2f01184e-e22b-5df5-ae63-d93ebab69eaf"\n StaticArraysCore = "1e83bf80-4336-4d27-bf5d-d5a4f845583c"\n Tracker = "9f7883ad-71c0-57eb-9f7f-b5c9e6d3789c"\n\n[[deps.Artifacts]]\nuuid = "56f22d72-fd6d-98f1-02f0-08ddc0907c33"\nversion = "1.11.0"\n\n[[deps.BangBang]]\ndeps = ["Accessors", "ConstructionBase", "InitialValues", "LinearAlgebra"]\ngit-tree-sha1 = "cceb62468025be98d42a5dc581b163c20896b040"\nuuid = "198e06fe-97b7-11e9-32a5-e1d131e6ad66"\nversion = "0.4.9"\n\n [deps.BangBang.extensions]\n BangBangChainRulesCoreExt = "ChainRulesCore"\n BangBangDataFramesExt = "DataFrames"\n BangBangStaticArraysExt = "StaticArrays"\n BangBangStructArraysExt = "StructArrays"\n BangBangTablesExt = "Tables"\n BangBangTypedTablesExt = "TypedTables"\n\n [deps.BangBang.weakdeps]\n ChainRulesCore = "d360d2e6-b24c-11e9-a2a3-2a2ae2dbcce4"\n DataFrames = "a93c6f00-e57d-5684-b7b6-d8193f3e46c0"\n StaticArrays = "90137ffa-7385-5640-81b9-e52037218182"\n StructArrays = "09ab397b-f2b6-538f-b94a-2f83cf4a842a"\n Tables = "bd369af6-aec1-5ad0-b16a-f7cc5008161c"\n TypedTables = "9d95f2ec-7b3d-5a63-8d20-e2491e220bb9"\n\n[[deps.Base64]]\nuuid = "2a0f44e3-6c83-55bd-87e4-b1978d98bd5f"\nversion = "1.11.0"\n\n[[deps.Bijectors]]\ndeps = ["ADTypes", "AbstractPPL", "ArgCheck", "ChangesOfVariables", "Distributions", "DocStringExtensions", "FillArrays", "Functors", "InverseFunctions", "IrrationalConstants", "LinearAlgebra", "LogExpFunctions", "MappedArrays", "Random", "Reexport", "Roots", "SparseArrays", "Statistics", "Test"]\ngit-tree-sha1 = "1eddcf2576939a8990350c1d23eb51a14752b7b9"\nuuid = "76274a88-744f-5084-9051-94815aaf08c4"\nversion = "0.16.2"\n\n [deps.Bijectors.extensions]\n BijectorsChainRulesCoreExt = "ChainRulesCore"\n BijectorsEnzymeCoreExt = "EnzymeCore"\n BijectorsForwardDiffExt = "ForwardDiff"\n BijectorsLazyArraysExt = "LazyArrays"\n BijectorsMooncakeExt = "Mooncake"\n 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"ChainRulesCore"\n SciMLBaseDifferentiationInterfaceExt = "DifferentiationInterface"\n SciMLBaseDistributionsExt = "Distributions"\n SciMLBaseEnzymeExt = "Enzyme"\n SciMLBaseForwardDiffExt = "ForwardDiff"\n SciMLBaseFunctionPropertiesExt = "FunctionProperties"\n SciMLBaseMakieExt = "Makie"\n SciMLBaseMeasurementsExt = "Measurements"\n SciMLBaseMonteCarloMeasurementsExt = "MonteCarloMeasurements"\n SciMLBaseMooncakeExt = "Mooncake"\n SciMLBasePartialFunctionsExt = "PartialFunctions"\n SciMLBasePyCallExt = "PyCall"\n SciMLBasePythonCallExt = "PythonCall"\n SciMLBaseRCallExt = "RCall"\n SciMLBaseReverseDiffExt = "ReverseDiff"\n SciMLBaseStaticArraysExt = "StaticArrays"\n SciMLBaseTrackerExt = "Tracker"\n SciMLBaseZygoteExt = ["Zygote", "ChainRulesCore"]\n\n [deps.SciMLBase.weakdeps]\n ChainRules = "082447d4-558c-5d27-93f4-14fc19e9eca2"\n ChainRulesCore = "d360d2e6-b24c-11e9-a2a3-2a2ae2dbcce4"\n DifferentiationInterface = "a0c0ee7d-e4b9-4e03-894e-1c5f64a51d63"\n Distributions = "31c24e10-a181-5473-b8eb-7969acd0382f"\n Enzyme = "7da242da-08ed-463a-9acd-ee780be4f1d9"\n ForwardDiff = "f6369f11-7733-5829-9624-2563aa707210"\n FunctionProperties = "f62d2435-5019-4c03-9749-2d4c77af0cbc"\n Makie = "ee78f7c6-11fb-53f2-987a-cfe4a2b5a57a"\n Measurements = "eff96d63-e80a-5855-80a2-b1b0885c5ab7"\n MonteCarloMeasurements = "0987c9cc-fe09-11e8-30f0-b96dd679fdca"\n Mooncake = "da2b9cff-9c12-43a0-ae48-6db2b0edb7d6"\n PartialFunctions = "570af359-4316-4cb7-8c74-252c00c2016b"\n PyCall = "438e738f-606a-5dbb-bf0a-cddfbfd45ab0"\n PythonCall = "6099a3de-0909-46bc-b1f4-468b9a2dfc0d"\n RCall = "6f49c342-dc21-5d91-9882-a32aef131414"\n ReverseDiff = "37e2e3b7-166d-5795-8a7a-e32c996b4267"\n StaticArrays = "90137ffa-7385-5640-81b9-e52037218182"\n Tracker = "9f7883ad-71c0-57eb-9f7f-b5c9e6d3789c"\n Zygote = "e88e6eb3-aa80-5325-afca-941959d7151f"\n\n[[deps.SciMLLogging]]\ndeps = ["Logging", "LoggingExtras", "Preferences"]\ngit-tree-sha1 = "46ef4d02442bc5efd07f5edc374f3854b7781165"\nuuid = "a6db7da4-7206-11f0-1eab-35f2a5dbe1d1"\nversion = "2.0.2"\n\n [deps.SciMLLogging.extensions]\n SciMLLoggingTracyExt = "Tracy"\n\n [deps.SciMLLogging.weakdeps]\n Tracy = "e689c965-62c8-4b79-b2c5-8359227902fd"\n\n[[deps.SciMLOperators]]\ndeps = ["Accessors", "Adapt", "ArrayInterface", "DocStringExtensions", "LinearAlgebra"]\ngit-tree-sha1 = "54ac780e1be8c12ad39295b5d4dfd4b1af3685ba"\nuuid = "c0aeaf25-5076-4817-a8d5-81caf7dfa961"\nversion = "1.24.0"\n\n [deps.SciMLOperators.extensions]\n SciMLOperatorsLoopVectorizationExt = "LoopVectorization"\n SciMLOperatorsSparseArraysExt = "SparseArrays"\n SciMLOperatorsStaticArraysCoreExt = "StaticArraysCore"\n\n [deps.SciMLOperators.weakdeps]\n LoopVectorization = "bdcacae8-1622-11e9-2a5c-532679323890"\n SparseArrays = "2f01184e-e22b-5df5-ae63-d93ebab69eaf"\n StaticArraysCore = "1e83bf80-4336-4d27-bf5d-d5a4f845583c"\n\n[[deps.SciMLPublic]]\ngit-tree-sha1 = "2b1b64add566435a768abdb3b053cac17d19ff3c"\nuuid = "431bcebd-1456-4ced-9d72-93c2757fff0b"\nversion = "1.2.1"\n\n[[deps.SciMLStructures]]\ndeps = ["ArrayInterface", "PrecompileTools"]\ngit-tree-sha1 = "2850a3f887494e10d7b1d04b5d69519bec4dc305"\nuuid = "53ae85a6-f571-4167-b2af-e1d143709226"\nversion = "1.10.2"\n\n[[deps.ScientificTypesBase]]\ndeps = ["InteractiveUtils"]\ngit-tree-sha1 = "e785eaa35a0f5518a388f9010e66fda64ea95ede"\nuuid = "30f210dd-8aff-4c5f-94ba-8e64358c1161"\nversion = "3.1.0"\n\n[[deps.Serialization]]\nuuid = "9e88b42a-f829-5b0c-bbe9-9e923198166b"\nversion = "1.11.0"\n\n[[deps.Setfield]]\ndeps = ["ConstructionBase", "Future", "MacroTools", "StaticArraysCore"]\ngit-tree-sha1 = "c5391c6ace3bc430ca630251d02ea9687169ca68"\nuuid = "efcf1570-3423-57d1-acb7-fd33fddbac46"\nversion = "1.1.2"\n\n[[deps.SimpleTraits]]\ndeps = ["InteractiveUtils", "MacroTools"]\ngit-tree-sha1 = "7ddb0b49c109481b046972c0e4ab02b2127d6a75"\nuuid = "699a6c99-e7fa-54fc-8d76-47d257e15c1d"\nversion = "0.9.6"\n\n[[deps.Sockets]]\nuuid = "6462fe0b-24de-5631-8697-dd941f90decc"\nversion = "1.11.0"\n\n[[deps.SortingAlgorithms]]\ndeps = ["DataStructures"]\ngit-tree-sha1 = "13cd91cc9be159e3f4d95b857fa2aa383b53772a"\nuuid = "a2af1166-a08f-5f64-846c-94a0d3cef48c"\nversion = "1.2.3"\n\n[[deps.SparseArrays]]\ndeps = ["Libdl", "LinearAlgebra", "Random", "Serialization", "SuiteSparse_jll"]\nuuid = "2f01184e-e22b-5df5-ae63-d93ebab69eaf"\nversion = "1.12.0"\n\n[[deps.SparseConnectivityTracer]]\ndeps = ["ADTypes", "DocStringExtensions", "FillArrays", "LinearAlgebra", "Random", "SparseArrays"]\ngit-tree-sha1 = "ad4d1275eeb223cbd4d362563954a661fe12d2f7"\nuuid = "9f842d2f-2579-4b1d-911e-f412cf18a3f5"\nversion = "1.2.2"\n\n [deps.SparseConnectivityTracer.extensions]\n SparseConnectivityTracerChainRulesCoreExt = "ChainRulesCore"\n SparseConnectivityTracerLogExpFunctionsExt = "LogExpFunctions"\n SparseConnectivityTracerNNlibExt = "NNlib"\n SparseConnectivityTracerNaNMathExt = "NaNMath"\n SparseConnectivityTracerSpecialFunctionsExt = "SpecialFunctions"\n\n [deps.SparseConnectivityTracer.weakdeps]\n ChainRulesCore = "d360d2e6-b24c-11e9-a2a3-2a2ae2dbcce4"\n LogExpFunctions = "2ab3a3ac-af41-5b50-aa03-7779005ae688"\n NNlib = "872c559c-99b0-510c-b3b7-b6c96a88d5cd"\n NaNMath = "77ba4419-2d1f-58cd-9bb1-8ffee604a2e3"\n SpecialFunctions = "276daf66-3868-5448-9aa4-cd146d93841b"\n\n[[deps.SparseMatrixColorings]]\ndeps = ["ADTypes", "DocStringExtensions", "LinearAlgebra", "PrecompileTools", "Random", "SparseArrays"]\ngit-tree-sha1 = "f63d76c7b7c329cf11badd564fd8ba877b09c3fe"\nuuid = "0a514795-09f3-496d-8182-132a7b665d35"\nversion = "0.4.27"\n\n [deps.SparseMatrixColorings.extensions]\n SparseMatrixColoringsCUDAExt = ["CUDA", "cuSPARSE"]\n SparseMatrixColoringsCliqueTreesExt = "CliqueTrees"\n SparseMatrixColoringsColorsExt = "Colors"\n SparseMatrixColoringsGPUArraysExt = "GPUArrays"\n SparseMatrixColoringsJuMPExt = ["JuMP", "MathOptInterface"]\n\n [deps.SparseMatrixColorings.weakdeps]\n CUDA = "052768ef-5323-5732-b1bb-66c8b64840ba"\n CliqueTrees = "60701a23-6482-424a-84db-faee86b9b1f8"\n Colors = "5ae59095-9a9b-59fe-a467-6f913c188581"\n GPUArrays = "0c68f7d7-f131-5f86-a1c3-88cf8149b2d7"\n JuMP = "4076af6c-e467-56ae-b986-b466b2749572"\n MathOptInterface = "b8f27783-ece8-5eb3-8dc8-9495eed66fee"\n cuSPARSE = "b26da814-b3bc-49ef-b0ee-c816305aa060"\n\n[[deps.SpecialFunctions]]\ndeps = ["IrrationalConstants", "LogExpFunctions", "OpenLibm_jll", "OpenSpecFun_jll"]\ngit-tree-sha1 = "6547cbdd8ce32efba0d21c5a40fa96d1a3548f9f"\nuuid = "276daf66-3868-5448-9aa4-cd146d93841b"\nversion = "2.8.0"\nweakdeps = ["ChainRulesCore"]\n\n [deps.SpecialFunctions.extensions]\n SpecialFunctionsChainRulesCoreExt = "ChainRulesCore"\n\n[[deps.StableRNGs]]\ndeps = ["Random"]\ngit-tree-sha1 = "4f96c596b8c8258cc7d3b19797854d368f243ddc"\nuuid = "860ef19b-820b-49d6-a774-d7a799459cd3"\nversion = "1.0.4"\n\n[[deps.StaticArrays]]\ndeps = ["LinearAlgebra", "PrecompileTools", "Random", "StaticArraysCore"]\ngit-tree-sha1 = "246a8bb2e6667f832eea063c3a56aef96429a3db"\nuuid = "90137ffa-7385-5640-81b9-e52037218182"\nversion = "1.9.18"\nweakdeps = ["ChainRulesCore", "Statistics"]\n\n [deps.StaticArrays.extensions]\n StaticArraysChainRulesCoreExt = "ChainRulesCore"\n StaticArraysStatisticsExt = "Statistics"\n\n[[deps.StaticArraysCore]]\ngit-tree-sha1 = "6ab403037779dae8c514bad259f32a447262455a"\nuuid = "1e83bf80-4336-4d27-bf5d-d5a4f845583c"\nversion = "1.4.4"\n\n[[deps.StatisticalTraits]]\ndeps = ["ScientificTypesBase"]\ngit-tree-sha1 = "89f86d9376acd18a1a4fbef66a56335a3a7633b8"\nuuid = "64bff920-2084-43da-a3e6-9bb72801c0c9"\nversion = "3.5.0"\n\n[[deps.Statistics]]\ndeps = ["LinearAlgebra"]\ngit-tree-sha1 = "ae3bb1eb3bba077cd276bc5cfc337cc65c3075c0"\nuuid = "10745b16-79ce-11e8-11f9-7d13ad32a3b2"\nversion = "1.11.1"\nweakdeps = ["SparseArrays"]\n\n [deps.Statistics.extensions]\n SparseArraysExt = ["SparseArrays"]\n\n[[deps.StatsAPI]]\ndeps = ["LinearAlgebra"]\ngit-tree-sha1 = "178ed29fd5b2a2cfc3bd31c13375ae925623ff36"\nuuid = "82ae8749-77ed-4fe6-ae5f-f523153014b0"\nversion = "1.8.0"\n\n[[deps.StatsBase]]\ndeps = ["AliasTables", "DataAPI", "DataStructures", "IrrationalConstants", "LinearAlgebra", "LogExpFunctions", "Missings", "Printf", "Random", "SortingAlgorithms", "SparseArrays", "Statistics", "StatsAPI"]\ngit-tree-sha1 = "e4d7a1a0edc20af42689ea6f4f3587a2175d50ee"\nuuid = "2913bbd2-ae8a-5f71-8c99-4fb6c76f3a91"\nversion = "0.34.12"\n\n[[deps.StatsFuns]]\ndeps = ["HypergeometricFunctions", "IrrationalConstants", "LogExpFunctions", "Reexport", "Rmath", "SpecialFunctions"]\ngit-tree-sha1 = "91f091a8716a6bb38417a6e6f274602a19aaa685"\nuuid = "4c63d2b9-4356-54db-8cca-17b64c39e42c"\nversion = "1.5.2"\nweakdeps = ["ChainRulesCore", "InverseFunctions"]\n\n [deps.StatsFuns.extensions]\n StatsFunsChainRulesCoreExt = "ChainRulesCore"\n StatsFunsInverseFunctionsExt = "InverseFunctions"\n\n[[deps.StructUtils]]\ndeps = ["Dates", "UUIDs"]\ngit-tree-sha1 = "82bee338d650aa515f31866c460cb7e3bcef90b8"\nuuid = "ec057cc2-7a8d-4b58-b3b3-92acb9f63b42"\nversion = "2.8.2"\n\n [deps.StructUtils.extensions]\n StructUtilsMeasurementsExt = ["Measurements"]\n StructUtilsStaticArraysCoreExt = ["StaticArraysCore"]\n StructUtilsTablesExt = ["Tables"]\n\n [deps.StructUtils.weakdeps]\n Measurements = "eff96d63-e80a-5855-80a2-b1b0885c5ab7"\n StaticArraysCore = "1e83bf80-4336-4d27-bf5d-d5a4f845583c"\n Tables = "bd369af6-aec1-5ad0-b16a-f7cc5008161c"\n\n[[deps.StyledStrings]]\nuuid = "f489334b-da3d-4c2e-b8f0-e476e12c162b"\nversion = "1.11.0"\n\n[[deps.SuiteSparse]]\ndeps = ["Libdl", "LinearAlgebra", "Serialization", "SparseArrays"]\nuuid = "4607b0f0-06f3-5cda-b6b1-a6196a1729e9"\n\n[[deps.SuiteSparse_jll]]\ndeps = ["Artifacts", "Libdl", "libblastrampoline_jll"]\nuuid = "bea87d4a-7f5b-5778-9afe-8cc45184846c"\nversion = "7.8.3+2"\n\n[[deps.SymbolicIndexingInterface]]\ndeps = ["Accessors", "ArrayInterface", "RuntimeGeneratedFunctions", "StaticArraysCore"]\ngit-tree-sha1 = "72d6d882fa1e59c699f1b22d846db94c5600295c"\nuuid = "2efcf032-c050-4f8e-a9bb-153293bab1f5"\nversion = "0.3.50"\n\n [deps.SymbolicIndexingInterface.extensions]\n SymbolicIndexingInterfacePrettyTablesExt = "PrettyTables"\n\n [deps.SymbolicIndexingInterface.weakdeps]\n PrettyTables = "08abe8d2-0d0c-5749-adfa-8a2ac140af0d"\n\n[[deps.TOML]]\ndeps = ["Dates"]\nuuid = "fa267f1f-6049-4f14-aa54-33bafae1ed76"\nversion = "1.0.3"\n\n[[deps.TableTraits]]\ndeps = ["IteratorInterfaceExtensions"]\ngit-tree-sha1 = "c06b2f539df1c6efa794486abfb6ed2022561a39"\nuuid = "3783bdb8-4a98-5b6b-af9a-565f29a5fe9c"\nversion = "1.0.1"\n\n[[deps.Tables]]\ndeps = ["DataAPI", "DataValueInterfaces", "IteratorInterfaceExtensions", "OrderedCollections", "TableTraits"]\ngit-tree-sha1 = "0f38a06c83f0007bbab3cf911262841c9a0f07e0"\nuuid = "bd369af6-aec1-5ad0-b16a-f7cc5008161c"\nversion = "1.13.0"\n\n[[deps.Tar]]\ndeps = ["ArgTools", "SHA"]\nuuid = "a4e569a6-e804-4fa4-b0f3-eef7a1d5b13e"\nversion = "1.10.0"\n\n[[deps.TerminalLoggers]]\ndeps = ["LeftChildRightSiblingTrees", "Logging", "Markdown", "Printf", "ProgressLogging", "UUIDs"]\ngit-tree-sha1 = "f133fab380933d042f6796eda4e130272ba520ca"\nuuid = "5d786b92-1e48-4d6f-9151-6b4477ca9bed"\nversion = "0.1.7"\n\n[[deps.Test]]\ndeps = ["InteractiveUtils", "Logging", "Random", "Serialization"]\nuuid = "8dfed614-e22c-5e08-85e1-65c5234f0b40"\nversion = "1.11.0"\n\n[[deps.TranscodingStreams]]\ngit-tree-sha1 = "0c45878dcfdcfa8480052b6ab162cdd138781742"\nuuid = "3bb67fe8-82b1-5028-8e26-92a6c54297fa"\nversion = "0.11.3"\n\n[[deps.TruncatedStacktraces]]\ndeps = ["InteractiveUtils", "MacroTools", "Preferences"]\ngit-tree-sha1 = "ea3e54c2bdde39062abf5a9758a23735558705e1"\nuuid = "781d530d-4396-4725-bb49-402e4bee1e77"\nversion = "1.4.0"\n\n[[deps.Turing]]\ndeps = ["ADTypes", "AbstractMCMC", "AbstractPPL", "Accessors", "AdvancedHMC", "AdvancedMH", "AdvancedPS", "AdvancedVI", "BangBang", "Bijectors", "Compat", "DataStructures", "Distributions", "DocStringExtensions", "DynamicPPL", "EllipticalSliceSampling", "FlexiChains", "ForwardDiff", "Libtask", "LinearAlgebra", "LogDensityProblems", "Optimization", "OptimizationOptimJL", "OrderedCollections", "Printf", "Random", "Reexport", "SciMLBase", "SpecialFunctions", "Statistics", "StatsAPI", "StatsBase", "StatsFuns"]\ngit-tree-sha1 = "36243b86c346ac2329f931b31d00c0f147f77381"\nuuid = "fce5fe82-541a-59a6-adf8-730c64b5f9a0"\nversion = "0.46.0"\n\n [deps.Turing.extensions]\n TuringDynamicHMCExt = "DynamicHMC"\n TuringMCMCChainsExt = "MCMCChains"\n\n [deps.Turing.weakdeps]\n DynamicHMC = "bbc10e6e-7c05-544b-b16e-64fede858acb"\n MCMCChains = "c7f686f2-ff18-58e9-bc7b-31028e88f75d"\n\n[[deps.UUIDs]]\ndeps = ["Random", "SHA"]\nuuid = "cf7118a7-6976-5b1a-9a39-7adc72f591a4"\nversion = "1.11.0"\n\n[[deps.Unicode]]\nuuid = "4ec0a83e-493e-50e2-b9ac-8f72acf5a8f5"\nversion = "1.11.0"\n\n[[deps.Zlib_jll]]\ndeps = ["Libdl"]\nuuid = "83775a58-1f1d-513f-b197-d71354ab007a"\nversion = "1.3.1+2"\n\n[[deps.libblastrampoline_jll]]\ndeps = ["Artifacts", "Libdl"]\nuuid = "8e850b90-86db-534c-a0d3-1478176c7d93"\nversion = "5.15.0+0"\n\n[[deps.nghttp2_jll]]\ndeps = ["Artifacts", "Libdl"]\nuuid = "8e850ede-7688-5339-a07c-302acd2aaf8d"\nversion = "1.64.0+1"\n\n[[deps.p7zip_jll]]\ndeps = ["Artifacts", "CompilerSupportLibraries_jll", "Libdl"]\nuuid = "3f19e933-33d8-53b3-aaab-bd5110c3b7a0"\nversion = "17.7.0+0"\n'
|
|
197
|
+
};
|
|
198
|
+
|
|
199
|
+
// src/runner-common.ts
|
|
70
200
|
function sharedTmpParent() {
|
|
71
201
|
const uid = typeof process.getuid === "function" ? `-${process.getuid()}` : "";
|
|
72
202
|
return join2(tmpdir(), `mcmcjs${uid}`);
|
|
73
203
|
}
|
|
74
|
-
function
|
|
75
|
-
const
|
|
76
|
-
|
|
77
|
-
|
|
204
|
+
function sharedCacheParent() {
|
|
205
|
+
const base = process.env.XDG_CACHE_HOME || join2(homedir2(), ".cache");
|
|
206
|
+
return join2(base, "mcmcjs");
|
|
207
|
+
}
|
|
208
|
+
function driverDir() {
|
|
209
|
+
const digest = sha256(
|
|
210
|
+
Object.entries(JULIA_ASSETS).map(([k, v]) => `${k}\0${v}`).join("\0")
|
|
211
|
+
);
|
|
212
|
+
const dir = join2(sharedCacheParent(), "driver", digest.slice(0, 16));
|
|
213
|
+
if (existsSync(join2(dir, "driver.jl"))) return dir;
|
|
214
|
+
const staging = `${dir}.${process.pid}.tmp`;
|
|
215
|
+
for (const [name, contents] of Object.entries(JULIA_ASSETS)) {
|
|
216
|
+
const target = join2(staging, name);
|
|
217
|
+
mkdirSync(dirname(target), { recursive: true });
|
|
218
|
+
writeFileSync(target, contents);
|
|
219
|
+
}
|
|
220
|
+
mkdirSync(dirname(dir), { recursive: true });
|
|
221
|
+
try {
|
|
222
|
+
renameSync(staging, dir);
|
|
223
|
+
} catch {
|
|
224
|
+
rmSync(staging, { recursive: true, force: true });
|
|
225
|
+
}
|
|
226
|
+
return dir;
|
|
78
227
|
}
|
|
79
228
|
function driverPath() {
|
|
80
|
-
return
|
|
229
|
+
return join2(driverDir(), "driver.jl");
|
|
81
230
|
}
|
|
82
231
|
function workerPath() {
|
|
83
|
-
return
|
|
232
|
+
return join2(driverDir(), "worker.jl");
|
|
84
233
|
}
|
|
85
234
|
function pinnedEnvDir() {
|
|
86
|
-
return join2(
|
|
235
|
+
return join2(driverDir(), "julia-env");
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236
|
}
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237
|
function sha256(text) {
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238
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return createHash("sha256").update(text).digest("hex");
|
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@@ -116,7 +265,7 @@ function toStage(value) {
|
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// src/fit.ts
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function makeRequestDir(kind) {
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mkdirSync2(parent, { recursive: true });
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}
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function fitRequest(spec, outPath, opts) {
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@@ -170,7 +319,7 @@ function finalizeOkFit(spec, resolved, io, provenance, startedAt, elapsedMs) {
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elapsed_ms: elapsedMs
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};
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writeFileSync2(io.recordPath ?? `${io.outPath}.run.json`, `${JSON.stringify(record, null, 2)}
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`);
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status: "ok",
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@@ -190,7 +339,7 @@ async function runFit(spec, resolved, io) {
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const ownTmp = io.tmpDir === void 0;
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const tmp = io.tmpDir ?? makeRequestDir("fit");
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+
writeFileSync2(
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requestPath,
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195
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JSON.stringify(
|
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345
|
fitRequest(spec, io.outPath, {
|
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@@ -202,6 +351,7 @@ async function runFit(spec, resolved, io) {
|
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202
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const args = [
|
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...resolved.args,
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"--startup-file=no",
|
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+
...spec.sampler.parallel === "threads" ? ["--threads=auto"] : [],
|
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355
|
`--project=${io.projectDir}`,
|
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206
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|
driverPath(),
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requestPath
|
|
@@ -218,7 +368,7 @@ async function runFit(spec, resolved, io) {
|
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218
368
|
signal: io.signal
|
|
219
369
|
}));
|
|
220
370
|
} finally {
|
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|
-
if (ownTmp)
|
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|
+
if (ownTmp) rmSync2(tmp, { recursive: true, force: true });
|
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372
|
}
|
|
223
373
|
const elapsedMs = Math.round(performance.now() - start);
|
|
224
374
|
if (cancelled) {
|
|
@@ -234,7 +384,7 @@ async function runFit(spec, resolved, io) {
|
|
|
234
384
|
}
|
|
235
385
|
|
|
236
386
|
// src/loglik.ts
|
|
237
|
-
import { existsSync as existsSync3, readFileSync as readFileSync2, rmSync as
|
|
387
|
+
import { existsSync as existsSync3, readFileSync as readFileSync2, rmSync as rmSync3, writeFileSync as writeFileSync3 } from "fs";
|
|
238
388
|
import { join as join4 } from "path";
|
|
239
389
|
import {
|
|
240
390
|
canonicalJson as canonicalJson2,
|
|
@@ -248,7 +398,7 @@ async function runLogLik(spec, resolved, io) {
|
|
|
248
398
|
const ownTmp = io.tmpDir === void 0;
|
|
249
399
|
const tmp = io.tmpDir ?? makeRequestDir("loglik");
|
|
250
400
|
const requestPath = join4(tmp, "request.json");
|
|
251
|
-
|
|
401
|
+
writeFileSync3(
|
|
252
402
|
requestPath,
|
|
253
403
|
JSON.stringify({
|
|
254
404
|
mode: "loglik",
|
|
@@ -274,7 +424,7 @@ async function runLogLik(spec, resolved, io) {
|
|
|
274
424
|
try {
|
|
275
425
|
({ stdout, stderr, code } = await io.spawn(resolved.command, args));
|
|
276
426
|
} finally {
|
|
277
|
-
if (ownTmp)
|
|
427
|
+
if (ownTmp) rmSync3(tmp, { recursive: true, force: true });
|
|
278
428
|
}
|
|
279
429
|
const elapsedMs = Math.round(performance.now() - start);
|
|
280
430
|
if (code !== 0 || !existsSync3(io.outPath)) {
|
|
@@ -311,7 +461,7 @@ async function runLogLik(spec, resolved, io) {
|
|
|
311
461
|
started_at: startedAt,
|
|
312
462
|
elapsed_ms: elapsedMs
|
|
313
463
|
};
|
|
314
|
-
|
|
464
|
+
writeFileSync3(`${io.outPath}.run.json`, `${JSON.stringify(record, null, 2)}
|
|
315
465
|
`);
|
|
316
466
|
return {
|
|
317
467
|
status: "ok",
|
|
@@ -323,7 +473,7 @@ async function runLogLik(spec, resolved, io) {
|
|
|
323
473
|
}
|
|
324
474
|
|
|
325
475
|
// src/predict.ts
|
|
326
|
-
import { existsSync as existsSync4, readFileSync as readFileSync3, rmSync as
|
|
476
|
+
import { existsSync as existsSync4, readFileSync as readFileSync3, rmSync as rmSync4, writeFileSync as writeFileSync4 } from "fs";
|
|
327
477
|
import { join as join5 } from "path";
|
|
328
478
|
import {
|
|
329
479
|
canonicalJson as canonicalJson3,
|
|
@@ -348,7 +498,7 @@ async function runPredict(spec, resolved, io) {
|
|
|
348
498
|
const ownTmp = io.tmpDir === void 0;
|
|
349
499
|
const tmp = io.tmpDir ?? makeRequestDir("predict");
|
|
350
500
|
const requestPath = join5(tmp, "request.json");
|
|
351
|
-
|
|
501
|
+
writeFileSync4(
|
|
352
502
|
requestPath,
|
|
353
503
|
JSON.stringify({
|
|
354
504
|
mode: "predict",
|
|
@@ -375,7 +525,7 @@ async function runPredict(spec, resolved, io) {
|
|
|
375
525
|
try {
|
|
376
526
|
({ stdout, stderr, code } = await io.spawn(resolved.command, args));
|
|
377
527
|
} finally {
|
|
378
|
-
if (ownTmp)
|
|
528
|
+
if (ownTmp) rmSync4(tmp, { recursive: true, force: true });
|
|
379
529
|
}
|
|
380
530
|
const elapsedMs = Math.round(performance.now() - start);
|
|
381
531
|
if (code !== 0 || !existsSync4(io.outPath)) {
|
|
@@ -412,7 +562,7 @@ async function runPredict(spec, resolved, io) {
|
|
|
412
562
|
started_at: startedAt,
|
|
413
563
|
elapsed_ms: elapsedMs
|
|
414
564
|
};
|
|
415
|
-
|
|
565
|
+
writeFileSync4(`${io.outPath}.run.json`, `${JSON.stringify(record, null, 2)}
|
|
416
566
|
`);
|
|
417
567
|
return {
|
|
418
568
|
status: "ok",
|
|
@@ -424,8 +574,8 @@ async function runPredict(spec, resolved, io) {
|
|
|
424
574
|
}
|
|
425
575
|
|
|
426
576
|
// src/project.ts
|
|
427
|
-
import { copyFileSync, existsSync as existsSync5, mkdirSync as
|
|
428
|
-
import { homedir as
|
|
577
|
+
import { copyFileSync, existsSync as existsSync5, mkdirSync as mkdirSync3, readFileSync as readFileSync4, writeFileSync as writeFileSync5 } from "fs";
|
|
578
|
+
import { homedir as homedir3 } from "os";
|
|
429
579
|
import { join as join6 } from "path";
|
|
430
580
|
import { canonicalJson as canonicalJson4, DEFAULT_JULIA_CHANNEL } from "@mcmcjs/core";
|
|
431
581
|
import { createRunner as createRunner3 } from "@mcmcjs/engine";
|
|
@@ -465,7 +615,7 @@ function hasPins(pins) {
|
|
|
465
615
|
return pins !== void 0 && Object.keys(pins).length > 0;
|
|
466
616
|
}
|
|
467
617
|
function managedProjectDir(version, pins) {
|
|
468
|
-
const base = process.env.XDG_DATA_HOME || join6(
|
|
618
|
+
const base = process.env.XDG_DATA_HOME || join6(homedir3(), ".local", "share");
|
|
469
619
|
const root = join6(base, "mcmcjs", "julia", "env");
|
|
470
620
|
if (!version && !hasPins(pins)) return root;
|
|
471
621
|
let leaf = (version ?? "default").replace(/[^A-Za-z0-9._-]/g, "_");
|
|
@@ -506,7 +656,7 @@ function usesPinnedEnv(version, pins) {
|
|
|
506
656
|
async function ensureProject(juliaBin, run = createRunner3(30 * 6e4), dir = managedProjectDir(), pins, opts) {
|
|
507
657
|
validatePins(pins);
|
|
508
658
|
if (managedProjectReady(dir, pins)) return dir;
|
|
509
|
-
|
|
659
|
+
mkdirSync3(dir, { recursive: true });
|
|
510
660
|
if (usesPinnedEnv(opts?.version, pins)) {
|
|
511
661
|
copyFileSync(join6(pinnedEnvDir(), "Project.toml"), join6(dir, "Project.toml"));
|
|
512
662
|
copyFileSync(join6(pinnedEnvDir(), "Manifest.toml"), join6(dir, "Manifest.toml"));
|
|
@@ -520,7 +670,7 @@ async function ensureProject(juliaBin, run = createRunner3(30 * 6e4), dir = mana
|
|
|
520
670
|
const code = `using Pkg; Pkg.add(${packageSpecsCode(pins)}); Pkg.precompile()`;
|
|
521
671
|
await run(juliaBin, ["--startup-file=no", `--project=${dir}`, "-e", code]);
|
|
522
672
|
}
|
|
523
|
-
|
|
673
|
+
writeFileSync5(sentinelPath(dir), expectedSentinel(pins));
|
|
524
674
|
return dir;
|
|
525
675
|
}
|
|
526
676
|
|
|
@@ -714,7 +864,7 @@ function assertVersionsInstalled(channels, installed) {
|
|
|
714
864
|
|
|
715
865
|
// src/worker.ts
|
|
716
866
|
import { spawn } from "child_process";
|
|
717
|
-
import { mkdirSync as
|
|
867
|
+
import { mkdirSync as mkdirSync4, readdirSync, readFileSync as readFileSync5, rmdirSync, rmSync as rmSync5, statSync } from "fs";
|
|
718
868
|
import { createConnection } from "net";
|
|
719
869
|
import { join as join8 } from "path";
|
|
720
870
|
import { parseDrawBatchLine, parseProgressLine } from "@mcmcjs/engine";
|
|
@@ -745,13 +895,13 @@ function killWorker(socket) {
|
|
|
745
895
|
}
|
|
746
896
|
} catch {
|
|
747
897
|
}
|
|
748
|
-
|
|
749
|
-
|
|
898
|
+
rmSync5(socket, { force: true });
|
|
899
|
+
rmSync5(pidPath, { force: true });
|
|
750
900
|
}
|
|
751
901
|
function workersDir() {
|
|
752
902
|
const runtime = process.env.XDG_RUNTIME_DIR;
|
|
753
903
|
const dir = runtime ? join8(runtime, "mcmcjs") : join8(sharedTmpParent(), "workers");
|
|
754
|
-
|
|
904
|
+
mkdirSync4(dir, { recursive: true, mode: 448 });
|
|
755
905
|
return dir;
|
|
756
906
|
}
|
|
757
907
|
function workerSocketPath(command, projectDir) {
|
|
@@ -779,13 +929,13 @@ var delay = (ms) => new Promise((resolve) => setTimeout(resolve, ms));
|
|
|
779
929
|
function acquireStartLock(socketPath) {
|
|
780
930
|
const lock = `${socketPath}.start`;
|
|
781
931
|
try {
|
|
782
|
-
|
|
932
|
+
mkdirSync4(lock);
|
|
783
933
|
return true;
|
|
784
934
|
} catch {
|
|
785
935
|
try {
|
|
786
936
|
if (Date.now() - statSync(lock).mtimeMs > START_WAIT_MS) {
|
|
787
937
|
rmdirSync(lock);
|
|
788
|
-
|
|
938
|
+
mkdirSync4(lock);
|
|
789
939
|
return true;
|
|
790
940
|
}
|
|
791
941
|
} catch {
|
|
@@ -810,7 +960,7 @@ async function ensureWorker(resolved, projectDir, notify, signal) {
|
|
|
810
960
|
const startedHere = acquireStartLock(path);
|
|
811
961
|
if (startedHere) {
|
|
812
962
|
try {
|
|
813
|
-
|
|
963
|
+
rmSync5(path, { force: true });
|
|
814
964
|
notify?.("starting the Julia worker (first use loads Turing, can take a minute)...");
|
|
815
965
|
const child = spawn(
|
|
816
966
|
resolved.command,
|
|
@@ -979,7 +1129,7 @@ async function runFitAuto(spec, resolved, io) {
|
|
|
979
1129
|
if (io.signal?.aborted) {
|
|
980
1130
|
return { status: "cancelled", runtimeRequested: spec.backend.version, elapsedMs: 0 };
|
|
981
1131
|
}
|
|
982
|
-
if (io.daemon && process.platform !== "win32") {
|
|
1132
|
+
if (io.daemon && process.platform !== "win32" && spec.sampler.parallel !== "distributed") {
|
|
983
1133
|
const start = performance.now();
|
|
984
1134
|
try {
|
|
985
1135
|
return await runFitViaWorker(spec, resolved, io);
|
|
@@ -1022,7 +1172,7 @@ async function stopWorker(socket) {
|
|
|
1022
1172
|
try {
|
|
1023
1173
|
sock = await connectOnce(socket);
|
|
1024
1174
|
} catch {
|
|
1025
|
-
|
|
1175
|
+
rmSync5(socket, { force: true });
|
|
1026
1176
|
return "stale";
|
|
1027
1177
|
}
|
|
1028
1178
|
const acked = await new Promise((resolve) => {
|
|
@@ -1038,7 +1188,7 @@ async function stopWorker(socket) {
|
|
|
1038
1188
|
});
|
|
1039
1189
|
sock.destroy();
|
|
1040
1190
|
if (!acked) return "pending";
|
|
1041
|
-
|
|
1191
|
+
rmSync5(socket, { force: true });
|
|
1042
1192
|
return "stopped";
|
|
1043
1193
|
}
|
|
1044
1194
|
export {
|