diff --git a/README.md b/README.md index beb16ce..bfca0d2 100644 --- a/README.md +++ b/README.md @@ -24,6 +24,10 @@ Clone the repository: git clone https://github.com/geo-kit/GeoCode.git +To run reservoir simulations with [JutulDarcy](https://github.com/sintefmath/JutulDarcy.jl), +install [Julia](https://julialang.org/downloads/) and instantiate the driver dependencies once: + + julia --project=geocode/bin -e "using Pkg; Pkg.instantiate()" > [!Note] > Note: the project is in developement. 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b/geocode/bin/Project.toml new file mode 100644 index 0000000..faffc3a --- /dev/null +++ b/geocode/bin/Project.toml @@ -0,0 +1,4 @@ +[deps] +HDF5 = "f67ccb44-e63f-5c2f-98bd-6dc0ccc4ba2f" +JSON3 = "0f8b85d8-7281-11e9-16c2-39a750bddbf1" +JutulDarcy = "82210473-ab04-4dce-b31b-11573c4f8e0a" diff --git a/geocode/bin/jutul_run.jl b/geocode/bin/jutul_run.jl new file mode 100644 index 0000000..4a05b87 --- /dev/null +++ b/geocode/bin/jutul_run.jl @@ -0,0 +1,218 @@ +#!/usr/bin/env julia +# JutulDarcy driver: setup_case_from_data_file -> simulate_reservoir -> +# export states.h5, wells.h5, cell_indices.h5 and manifest.json. +# The JLD2 cache written by simulate_reservoir is kept under /jutul_state/ +# for native JutulDarcy restart. +# +# CLI: +# jutul_run.jl --case= --out= [--restart=none|latest|step:N] + +using HDF5 +using JSON3 +using Dates +using JutulDarcy + +# tNavigator-specific keywords unknown to GeoEnergyIO: skip instead of failing. +JutulDarcy.GeoEnergyIO.InputParser.skip_kw!(:RUNCTRL, 1) + +# Production and injection rates are split into separate non-negative columns. +const WELLS_COLUMNS = ["time_days", "WBHP", "WOPR", "WWPR", "WGPR", "WWIR", "WGIR"] +const WELLS_UNITS = Dict( + "time_days" => "d", "WBHP" => "bar", + "WOPR" => "sm3/d", "WWPR" => "sm3/d", "WGPR" => "sm3/d", + "WWIR" => "sm3/d", "WGIR" => "sm3/d", +) + +function parse_args(argv) + out = Dict{String,Any}("restart" => "none") + for a in argv + if startswith(a, "--case=") out["case"] = a[8:end] + elseif startswith(a, "--out=") out["out"] = a[7:end] + elseif startswith(a, "--restart=") out["restart"] = a[11:end] + end + end + haskey(out, "case") || error("--case= is required") + haskey(out, "out") || error("--out= is required") + return out +end + +# Translate the restart arg: "none" -> false; "latest" -> true; "step:N" -> N. +function parse_restart(s::String) + s == "none" && return false + s == "latest" && return true + startswith(s, "step:") && return parse(Int, s[6:end]) + error("unrecognised --restart value: $s") +end + +# Extract a (ncells, nsteps) matrix from a vector of per-step JutulDarcy state dicts. +function stack_state(states, var::Symbol, nphases_idx::Union{Nothing,Int}=nothing) + nsteps = length(states) + first = states[1][var] + if nphases_idx === nothing + ncells = length(first) + m = zeros(Float64, ncells, nsteps) + for s in 1:nsteps + m[:, s] = Vector{Float64}(states[s][var]) + end + return m + else + # Saturations is (nphases, ncells); take the requested phase row. + ncells = size(first, 2) + m = zeros(Float64, ncells, nsteps) + for s in 1:nsteps + row = states[s][var][nphases_idx, :] + m[:, s] = Vector{Float64}(row) + end + return m + end +end + +# Map JutulDarcy phase to the dataset name. +function saturation_dataset_name(phase) + s = string(phase) + occursin("Aqueous", s) && return "/swat" + occursin("Liquid", s) && return "/soil" + occursin("Vapor", s) && return "/sgas" + occursin("Vapour", s) && return "/sgas" + return nothing +end + +function run_simulation(args) + @info "Setting up case from $(args["case"])..." + case = setup_case_from_data_file(args["case"]) + + jutul_state_dir = joinpath(args["out"], "jutul_state") + mkpath(jutul_state_dir) + + restart_arg = parse_restart(args["restart"]) + @info "Running simulate_reservoir(output_path=$jutul_state_dir, restart=$restart_arg)..." + result = simulate_reservoir(case; output_path = jutul_state_dir, restart = restart_arg) + return case, result.wells, result.states +end + +function export_states(case, states, outpath::String) + pressure = stack_state(states, :Pressure) + ncells = size(pressure, 1) + + phases = try + case.model.models.Reservoir.system.phases + catch + [] + end + + # Prepend state0 so the exported shape is (ncells, nsteps + 1). + p0_vec = Vector{Float64}(case.state0[:Reservoir][:Pressure]) + pressure = hcat(p0_vec, pressure) + + sat_datasets = Dict{String,Matrix{Float64}}() + if !isempty(phases) + s0_mat = Matrix{Float64}(case.state0[:Reservoir][:Saturations]) + for (i, p) in enumerate(phases) + name = saturation_dataset_name(p) + name === nothing && continue + sat = stack_state(states, :Saturations, i) + s0 = Vector{Float64}(s0_mat[i, :]) + sat_datasets[name] = hcat(s0, sat) + end + end + + total_steps = size(pressure, 2) + # state0 is at t=0, step k ends sum(case.dt[1:k]) seconds after start; + # full DateTime so sub-day report steps stay distinct. + start = DateTime(case.input_data["RUNSPEC"]["START"]) + cum_s = vcat(0.0, cumsum(Vector{Float64}(case.dt))) + @assert length(cum_s) == total_steps "dt length inconsistent with solved steps" + + h5open(outpath, "w") do f + f["/pressure"] = pressure + for (name, data) in sat_datasets + f[name] = data + end + f["/dates_iso8601"] = String[string(start + Second(round(Int, cum_s[s]))) for s in 1:total_steps] + end + return ncells, total_steps, collect(keys(sat_datasets)) +end + +# Look up the (nx, ny, nz) DIMENS from a parsed RUNSPEC block; GeoEnergyIO +# may wrap the vector in a dict. +function _grid_dims(case) + dims = case.input_data["RUNSPEC"]["DIMENS"] + if isa(dims, AbstractDict) + dims = dims["DIMENS"] + end + return Int(dims[1]), Int(dims[2]), Int(dims[3]) +end + +function export_wells(ws, outpath::String) + names = collect(keys(ws.wells)) + nsteps = length(ws.time) + ncols = length(WELLS_COLUMNS) + h5open(outpath, "w") do f + g = create_group(f, "wells") + for w in names + wd = ws[w] + mat = zeros(Float64, ncols, nsteps) + for s in 1:nsteps + # JutulDarcy surface rates are signed (negative = out of the + # reservoir = production). Split into non-negative production + # and injection columns so both plot as positive numbers. + orat = haskey(wd, :orat) ? Float64(wd[:orat][s]) * 86400.0 : 0.0 + wrat = haskey(wd, :wrat) ? Float64(wd[:wrat][s]) * 86400.0 : 0.0 + grat = haskey(wd, :grat) ? Float64(wd[:grat][s]) * 86400.0 : 0.0 + mat[1, s] = Float64(ws.time[s] / 86400.0) # seconds -> days + mat[2, s] = haskey(wd, :bhp) ? Float64(wd[:bhp][s]) / 1e5 : NaN # Pa -> bar + mat[3, s] = max(-orat, 0.0) # WOPR + mat[4, s] = max(-wrat, 0.0) # WWPR + mat[5, s] = max(-grat, 0.0) # WGPR + mat[6, s] = max(wrat, 0.0) # WWIR + mat[7, s] = max(grat, 0.0) # WGIR + end + ds = create_dataset(g, string(w), datatype(Float64), dataspace(size(mat))) + write(ds, mat) + attrs(ds)["columns"] = join(WELLS_COLUMNS, ",") + attrs(ds)["units"] = join([WELLS_UNITS[c] for c in WELLS_COLUMNS], ",") + end + end + return [string(n) for n in names] +end + +function export_cell_indices(case, outpath::String) + # cell_map[i] is the 1-based natural-grid index of the i-th active cell; + # rebase to 0 for numpy consumers. + cm = case.model.models.Reservoir.data_domain.representation.cell_map + h5open(outpath, "w") do f + f["/active_to_natural"] = Int64.(cm .- 1) + end +end + +function main(argv) + args = parse_args(argv) + outdir = args["out"] + mkpath(outdir) + + case, ws, states = run_simulation(args) + ncells, nsteps, sat_names = export_states(case, states, joinpath(outdir, "states.h5")) + well_names = export_wells(ws, joinpath(outdir, "wells.h5")) + export_cell_indices(case, joinpath(outdir, "cell_indices.h5")) + nx, ny, nz = _grid_dims(case) + + manifest = Dict{String,Any}( + "simulator" => "jutul", + "jutuldarcy" => string(pkgversion(JutulDarcy)), + "case" => args["case"], + "grid" => Dict("nx" => nx, "ny" => ny, "nz" => nz, "n_active" => ncells), + "states" => Dict("file" => "states.h5", "datasets" => sat_names, "n_steps" => nsteps), + "wells" => Dict("file" => "wells.h5", "names" => well_names, + "columns" => WELLS_COLUMNS, "units" => WELLS_UNITS), + "restart" => args["restart"], + "completed_at" => string(now(UTC)) * "Z", + ) + open(joinpath(outdir, "manifest.json"), "w") do io + JSON3.pretty(io, manifest) + end + return 0 +end + +if abspath(PROGRAM_FILE) == @__FILE__ + exit(main(ARGS)) +end diff --git a/geocode/field/__init__.py b/geocode/field/__init__.py index 4766646..103bf20 100644 --- a/geocode/field/__init__.py +++ b/geocode/field/__init__.py @@ -5,4 +5,4 @@ from .wells import Wells from .field import Field from .tables import Tables -from .utils.misc import execute_tnav_models +from .utils.misc import execute_tnav_models, execute_julia_models diff --git a/geocode/field/faults.py b/geocode/field/faults.py index 40e97aa..d460ce6 100644 --- a/geocode/field/faults.py +++ b/geocode/field/faults.py @@ -7,7 +7,19 @@ from .utils.decorators import apply_to_each_node -FACES = {'X': [1, 3, 5, 7], 'Y': [2, 3, 6, 7], 'Z': [4, 5, 6, 7]} +# Corner indices of each cell face for Eclipse FAULTS directions; X/Y/Z and +# the I/J/K aliases mean the + face, the - suffix selects the opposite one. +_FACE_LOW = {'X': [0, 2, 4, 6], 'Y': [0, 1, 4, 5], 'Z': [0, 1, 2, 3]} +_FACE_HIGH = {'X': [1, 3, 5, 7], 'Y': [2, 3, 6, 7], 'Z': [4, 5, 6, 7]} +FACES = {} +for _axis_letter, _axis_alias in (('X', 'I'), ('Y', 'J'), ('Z', 'K')): + FACES[_axis_letter] = _FACE_HIGH[_axis_letter] + FACES[_axis_letter + '+'] = _FACE_HIGH[_axis_letter] + FACES[_axis_letter + '-'] = _FACE_LOW[_axis_letter] + FACES[_axis_alias] = _FACE_HIGH[_axis_letter] + FACES[_axis_alias + '+'] = _FACE_HIGH[_axis_letter] + FACES[_axis_alias + '-'] = _FACE_LOW[_axis_letter] +del _axis_letter, _axis_alias, _FACE_LOW, _FACE_HIGH class FaultsNode(BaseTreeNode): """Faults node.""" diff --git a/geocode/field/utils/misc.py b/geocode/field/utils/misc.py index 26fb654..ab76454 100644 --- a/geocode/field/utils/misc.py +++ b/geocode/field/utils/misc.py @@ -1,8 +1,13 @@ """Miscellaneous utils.""" -from pathlib import Path -import subprocess +import os +import shutil import signal +import subprocess +import sys +import time from contextlib import contextmanager +from pathlib import Path + import numpy as np import psutil from tqdm import tqdm @@ -87,3 +92,66 @@ def execute_tnav_models(models, license_url, except Exception as err: kill(p.pid) raise err + + +def execute_julia_models(runid, case_path, out_root, *, + restart="none", timeout_s=None): + """Run the JutulDarcy driver (jutul_run.jl) as a Julia subprocess. + + The driver writes states.h5, wells.h5, cell_indices.h5 and manifest.json + under //; consumers read them via georead.jutul.load. + + Parameters + ---------- + runid : str + Name of the run subdirectory. + case_path : str | Path + Path to the .DATA file. + out_root : str | Path + Directory that will contain the runid subdirectory. + restart : "none" | "latest" | int + JutulDarcy restart mode. "none" removes previous results; other + modes reuse the JLD2 cache under /jutul_state/. + timeout_s : int | None + Subprocess timeout in seconds. + + Returns + ------- + Path + The runid subdirectory. + """ + runid_dir = Path(out_root) / runid + if restart == "none" and runid_dir.exists(): + shutil.rmtree(runid_dir) + runid_dir.mkdir(parents=True, exist_ok=True) + + script = Path(__file__).parents[2] / "bin" / "jutul_run.jl" + if isinstance(restart, int): + restart = f"step:{restart}" + argv = [os.environ.get("JULIA", "julia"), + f"--project={script.parent}", + str(script), + f"--case={case_path}", + f"--out={runid_dir}", + f"--restart={restart}"] + + logpath = runid_dir / "julia.log" + deadline = None if timeout_s is None else time.monotonic() + timeout_s + with open(logpath, "wb") as log: + p = subprocess.Popen(argv, stdout=subprocess.PIPE, stderr=subprocess.STDOUT)#pylint:disable=consider-using-with + # Stream driver output (including the JutulDarcy progress bar) to the + # console while keeping a copy in julia.log. + while True: + chunk = p.stdout.read1(4096) + if not chunk: + break + log.write(chunk) + sys.stdout.buffer.write(chunk) + sys.stdout.flush() + if deadline is not None and time.monotonic() > deadline: + kill(p.pid) + raise TimeoutError(f"Julia simulation exceeded {timeout_s}s, see {logpath}") + rc = p.wait() + if rc != 0: + raise RuntimeError(f"jutul_run.jl exited with code {rc}, see {logpath}") + return runid_dir