@mcmcjs/julia 0.14.0 → 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 +157 -12
- package/dist/index.cjs.map +1 -1
- package/dist/index.js +186 -37
- package/dist/index.js.map +1 -1
- package/package.json +1 -1
- package/dist/driver.jl +0 -18
- package/dist/fitlib.jl +0 -869
- 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}.${process.pid}.tmp`;
|
|
215
|
+
for (const [name, contents] of Object.entries(JULIA_ASSETS)) {
|
|
216
|
+
const target = join2(staging, name);
|
|
217
|
+
mkdirSync(dirname(target), { recursive: true });
|
|
218
|
+
writeFileSync(target, contents);
|
|
219
|
+
}
|
|
220
|
+
mkdirSync(dirname(dir), { recursive: true });
|
|
221
|
+
try {
|
|
222
|
+
renameSync(staging, dir);
|
|
223
|
+
} catch {
|
|
224
|
+
rmSync(staging, { recursive: true, force: true });
|
|
225
|
+
}
|
|
226
|
+
return dir;
|
|
78
227
|
}
|
|
79
228
|
function driverPath() {
|
|
80
|
-
return
|
|
229
|
+
return join2(driverDir(), "driver.jl");
|
|
81
230
|
}
|
|
82
231
|
function workerPath() {
|
|
83
|
-
return
|
|
232
|
+
return join2(driverDir(), "worker.jl");
|
|
84
233
|
}
|
|
85
234
|
function pinnedEnvDir() {
|
|
86
|
-
return join2(
|
|
235
|
+
return join2(driverDir(), "julia-env");
|
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236
|
}
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|
88
237
|
function sha256(text) {
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89
238
|
return createHash("sha256").update(text).digest("hex");
|
|
@@ -116,7 +265,7 @@ function toStage(value) {
|
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// src/fit.ts
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266
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function makeRequestDir(kind) {
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-
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+
mkdirSync2(parent, { recursive: true });
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return mkdtempSync(join3(parent, `${kind}-`));
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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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started_at: startedAt,
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elapsed_ms: elapsedMs
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};
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-
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writeFileSync2(io.recordPath ?? `${io.outPath}.run.json`, `${JSON.stringify(record, null, 2)}
|
|
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323
|
`);
|
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324
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return {
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status: "ok",
|
|
@@ -190,7 +339,7 @@ async function runFit(spec, resolved, io) {
|
|
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190
339
|
const ownTmp = io.tmpDir === void 0;
|
|
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340
|
const tmp = io.tmpDir ?? makeRequestDir("fit");
|
|
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const requestPath = join3(tmp, "request.json");
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-
|
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+
writeFileSync2(
|
|
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|
requestPath,
|
|
195
344
|
JSON.stringify(
|
|
196
345
|
fitRequest(spec, io.outPath, {
|
|
@@ -219,7 +368,7 @@ async function runFit(spec, resolved, io) {
|
|
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219
368
|
signal: io.signal
|
|
220
369
|
}));
|
|
221
370
|
} finally {
|
|
222
|
-
if (ownTmp)
|
|
371
|
+
if (ownTmp) rmSync2(tmp, { recursive: true, force: true });
|
|
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372
|
}
|
|
224
373
|
const elapsedMs = Math.round(performance.now() - start);
|
|
225
374
|
if (cancelled) {
|
|
@@ -235,7 +384,7 @@ async function runFit(spec, resolved, io) {
|
|
|
235
384
|
}
|
|
236
385
|
|
|
237
386
|
// src/loglik.ts
|
|
238
|
-
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";
|
|
239
388
|
import { join as join4 } from "path";
|
|
240
389
|
import {
|
|
241
390
|
canonicalJson as canonicalJson2,
|
|
@@ -249,7 +398,7 @@ async function runLogLik(spec, resolved, io) {
|
|
|
249
398
|
const ownTmp = io.tmpDir === void 0;
|
|
250
399
|
const tmp = io.tmpDir ?? makeRequestDir("loglik");
|
|
251
400
|
const requestPath = join4(tmp, "request.json");
|
|
252
|
-
|
|
401
|
+
writeFileSync3(
|
|
253
402
|
requestPath,
|
|
254
403
|
JSON.stringify({
|
|
255
404
|
mode: "loglik",
|
|
@@ -275,7 +424,7 @@ async function runLogLik(spec, resolved, io) {
|
|
|
275
424
|
try {
|
|
276
425
|
({ stdout, stderr, code } = await io.spawn(resolved.command, args));
|
|
277
426
|
} finally {
|
|
278
|
-
if (ownTmp)
|
|
427
|
+
if (ownTmp) rmSync3(tmp, { recursive: true, force: true });
|
|
279
428
|
}
|
|
280
429
|
const elapsedMs = Math.round(performance.now() - start);
|
|
281
430
|
if (code !== 0 || !existsSync3(io.outPath)) {
|
|
@@ -312,7 +461,7 @@ async function runLogLik(spec, resolved, io) {
|
|
|
312
461
|
started_at: startedAt,
|
|
313
462
|
elapsed_ms: elapsedMs
|
|
314
463
|
};
|
|
315
|
-
|
|
464
|
+
writeFileSync3(`${io.outPath}.run.json`, `${JSON.stringify(record, null, 2)}
|
|
316
465
|
`);
|
|
317
466
|
return {
|
|
318
467
|
status: "ok",
|
|
@@ -324,7 +473,7 @@ async function runLogLik(spec, resolved, io) {
|
|
|
324
473
|
}
|
|
325
474
|
|
|
326
475
|
// src/predict.ts
|
|
327
|
-
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";
|
|
328
477
|
import { join as join5 } from "path";
|
|
329
478
|
import {
|
|
330
479
|
canonicalJson as canonicalJson3,
|
|
@@ -349,7 +498,7 @@ async function runPredict(spec, resolved, io) {
|
|
|
349
498
|
const ownTmp = io.tmpDir === void 0;
|
|
350
499
|
const tmp = io.tmpDir ?? makeRequestDir("predict");
|
|
351
500
|
const requestPath = join5(tmp, "request.json");
|
|
352
|
-
|
|
501
|
+
writeFileSync4(
|
|
353
502
|
requestPath,
|
|
354
503
|
JSON.stringify({
|
|
355
504
|
mode: "predict",
|
|
@@ -376,7 +525,7 @@ async function runPredict(spec, resolved, io) {
|
|
|
376
525
|
try {
|
|
377
526
|
({ stdout, stderr, code } = await io.spawn(resolved.command, args));
|
|
378
527
|
} finally {
|
|
379
|
-
if (ownTmp)
|
|
528
|
+
if (ownTmp) rmSync4(tmp, { recursive: true, force: true });
|
|
380
529
|
}
|
|
381
530
|
const elapsedMs = Math.round(performance.now() - start);
|
|
382
531
|
if (code !== 0 || !existsSync4(io.outPath)) {
|
|
@@ -413,7 +562,7 @@ async function runPredict(spec, resolved, io) {
|
|
|
413
562
|
started_at: startedAt,
|
|
414
563
|
elapsed_ms: elapsedMs
|
|
415
564
|
};
|
|
416
|
-
|
|
565
|
+
writeFileSync4(`${io.outPath}.run.json`, `${JSON.stringify(record, null, 2)}
|
|
417
566
|
`);
|
|
418
567
|
return {
|
|
419
568
|
status: "ok",
|
|
@@ -425,8 +574,8 @@ async function runPredict(spec, resolved, io) {
|
|
|
425
574
|
}
|
|
426
575
|
|
|
427
576
|
// src/project.ts
|
|
428
|
-
import { copyFileSync, existsSync as existsSync5, mkdirSync as
|
|
429
|
-
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";
|
|
430
579
|
import { join as join6 } from "path";
|
|
431
580
|
import { canonicalJson as canonicalJson4, DEFAULT_JULIA_CHANNEL } from "@mcmcjs/core";
|
|
432
581
|
import { createRunner as createRunner3 } from "@mcmcjs/engine";
|
|
@@ -466,7 +615,7 @@ function hasPins(pins) {
|
|
|
466
615
|
return pins !== void 0 && Object.keys(pins).length > 0;
|
|
467
616
|
}
|
|
468
617
|
function managedProjectDir(version, pins) {
|
|
469
|
-
const base = process.env.XDG_DATA_HOME || join6(
|
|
618
|
+
const base = process.env.XDG_DATA_HOME || join6(homedir3(), ".local", "share");
|
|
470
619
|
const root = join6(base, "mcmcjs", "julia", "env");
|
|
471
620
|
if (!version && !hasPins(pins)) return root;
|
|
472
621
|
let leaf = (version ?? "default").replace(/[^A-Za-z0-9._-]/g, "_");
|
|
@@ -507,7 +656,7 @@ function usesPinnedEnv(version, pins) {
|
|
|
507
656
|
async function ensureProject(juliaBin, run = createRunner3(30 * 6e4), dir = managedProjectDir(), pins, opts) {
|
|
508
657
|
validatePins(pins);
|
|
509
658
|
if (managedProjectReady(dir, pins)) return dir;
|
|
510
|
-
|
|
659
|
+
mkdirSync3(dir, { recursive: true });
|
|
511
660
|
if (usesPinnedEnv(opts?.version, pins)) {
|
|
512
661
|
copyFileSync(join6(pinnedEnvDir(), "Project.toml"), join6(dir, "Project.toml"));
|
|
513
662
|
copyFileSync(join6(pinnedEnvDir(), "Manifest.toml"), join6(dir, "Manifest.toml"));
|
|
@@ -521,7 +670,7 @@ async function ensureProject(juliaBin, run = createRunner3(30 * 6e4), dir = mana
|
|
|
521
670
|
const code = `using Pkg; Pkg.add(${packageSpecsCode(pins)}); Pkg.precompile()`;
|
|
522
671
|
await run(juliaBin, ["--startup-file=no", `--project=${dir}`, "-e", code]);
|
|
523
672
|
}
|
|
524
|
-
|
|
673
|
+
writeFileSync5(sentinelPath(dir), expectedSentinel(pins));
|
|
525
674
|
return dir;
|
|
526
675
|
}
|
|
527
676
|
|
|
@@ -715,7 +864,7 @@ function assertVersionsInstalled(channels, installed) {
|
|
|
715
864
|
|
|
716
865
|
// src/worker.ts
|
|
717
866
|
import { spawn } from "child_process";
|
|
718
|
-
import { mkdirSync as
|
|
867
|
+
import { mkdirSync as mkdirSync4, readdirSync, readFileSync as readFileSync5, rmdirSync, rmSync as rmSync5, statSync } from "fs";
|
|
719
868
|
import { createConnection } from "net";
|
|
720
869
|
import { join as join8 } from "path";
|
|
721
870
|
import { parseDrawBatchLine, parseProgressLine } from "@mcmcjs/engine";
|
|
@@ -746,13 +895,13 @@ function killWorker(socket) {
|
|
|
746
895
|
}
|
|
747
896
|
} catch {
|
|
748
897
|
}
|
|
749
|
-
|
|
750
|
-
|
|
898
|
+
rmSync5(socket, { force: true });
|
|
899
|
+
rmSync5(pidPath, { force: true });
|
|
751
900
|
}
|
|
752
901
|
function workersDir() {
|
|
753
902
|
const runtime = process.env.XDG_RUNTIME_DIR;
|
|
754
903
|
const dir = runtime ? join8(runtime, "mcmcjs") : join8(sharedTmpParent(), "workers");
|
|
755
|
-
|
|
904
|
+
mkdirSync4(dir, { recursive: true, mode: 448 });
|
|
756
905
|
return dir;
|
|
757
906
|
}
|
|
758
907
|
function workerSocketPath(command, projectDir) {
|
|
@@ -780,13 +929,13 @@ var delay = (ms) => new Promise((resolve) => setTimeout(resolve, ms));
|
|
|
780
929
|
function acquireStartLock(socketPath) {
|
|
781
930
|
const lock = `${socketPath}.start`;
|
|
782
931
|
try {
|
|
783
|
-
|
|
932
|
+
mkdirSync4(lock);
|
|
784
933
|
return true;
|
|
785
934
|
} catch {
|
|
786
935
|
try {
|
|
787
936
|
if (Date.now() - statSync(lock).mtimeMs > START_WAIT_MS) {
|
|
788
937
|
rmdirSync(lock);
|
|
789
|
-
|
|
938
|
+
mkdirSync4(lock);
|
|
790
939
|
return true;
|
|
791
940
|
}
|
|
792
941
|
} catch {
|
|
@@ -811,7 +960,7 @@ async function ensureWorker(resolved, projectDir, notify, signal) {
|
|
|
811
960
|
const startedHere = acquireStartLock(path);
|
|
812
961
|
if (startedHere) {
|
|
813
962
|
try {
|
|
814
|
-
|
|
963
|
+
rmSync5(path, { force: true });
|
|
815
964
|
notify?.("starting the Julia worker (first use loads Turing, can take a minute)...");
|
|
816
965
|
const child = spawn(
|
|
817
966
|
resolved.command,
|
|
@@ -1023,7 +1172,7 @@ async function stopWorker(socket) {
|
|
|
1023
1172
|
try {
|
|
1024
1173
|
sock = await connectOnce(socket);
|
|
1025
1174
|
} catch {
|
|
1026
|
-
|
|
1175
|
+
rmSync5(socket, { force: true });
|
|
1027
1176
|
return "stale";
|
|
1028
1177
|
}
|
|
1029
1178
|
const acked = await new Promise((resolve) => {
|
|
@@ -1039,7 +1188,7 @@ async function stopWorker(socket) {
|
|
|
1039
1188
|
});
|
|
1040
1189
|
sock.destroy();
|
|
1041
1190
|
if (!acked) return "pending";
|
|
1042
|
-
|
|
1191
|
+
rmSync5(socket, { force: true });
|
|
1043
1192
|
return "stopped";
|
|
1044
1193
|
}
|
|
1045
1194
|
export {
|