Jungfraujoch/image_analysis/structure_refinement/ModelStructureFactorsGPU.h

// SPDX-FileCopyrightText: 2026 Filip Leonarski, Paul Scherrer Institute <filip.leonarski@psi.ch>
// SPDX-License-Identifier: GPL-3.0-only

#pragma once

// A model's structure factors, and the maps made from coefficients on its reflections, on the GPU (CUDA
// builds only). It is what model validation computes on the CPU - F_calc from the model's density on a
// grid (gemmi's DensityCalculator, IT92, the Refmac-compatible blur and its unblur) and F_mask from the
// bulk-solvent mask (gemmi's SolventMasker with the Refmac radii), each transformed and read off as
// prepare_asu_data() lists them; and the inverse transform of a set of map coefficients, as
// get_f_phi_on_grid() and MapFromFPhi() make it - moved to the device. The two agree to rounding, not
// bit for bit: float distances and cuFFT for FFTW, and the crystal's symmetry is composed in reciprocal
// space (SymmetryComposition, RigidBodyRefine.h) instead of by symmetrizing the grid. The GPU is
// deterministic on its own.
//
// Made once for a cell, a group, a resolution and a model's atoms, then evaluated as often as the
// coordinates change: everything that depends only on the first four is worked out here, once, and
// the device buffers are reserved once. The atoms' B factors and occupancies are read at every
// evaluation, but the blur is the one the model had when the engine was made.

#include <complex>
#include <cstddef>
#include <memory>
#include <mutex>
#include <vector>

#include "gemmi/asudata.hpp"
#include "gemmi/dencalc.hpp"   // DensityCalculator
#include "gemmi/grid.hpp"
#include "gemmi/it92.hpp"
#include "gemmi/model.hpp"
#include "gemmi/symmetry.hpp"
#include "gemmi/unitcell.hpp"

#include "ModelStructureFactorsGPUEngine.h"

// Each atom's density as PutModelDensityOnGrid() (ModelGrid.cpp) sets it up for `dc` - its d_min, rate
// and blur - in model order; and the atoms of the bulk-solvent mask as PutMaskOnGrid() takes them: each
// one's index in the model and its radius, probe included.
void ModelDensityAtoms(const gemmi::Model &model, const gemmi::DensityCalculator<gemmi::IT92<float>, float> &dc,
                       std::vector<ModelDensityAtom> &atoms, std::vector<int> &mask_atom,
                       std::vector<float> &mask_radius);

class ModelStructureFactorsGPU {
public:
    // For `device`. Host work only: the grid, the reflections and what the device will need for them.
    // Nothing is reserved until Reserve(), so DeviceBytes() can decide first whether to. Every call works
    // on `device` and leaves the calling thread's current device as it found it; which card it is does not
    // change a number.
    ModelStructureFactorsGPU(int device, const gemmi::Model &model, const gemmi::UnitCell &cell,
                             const gemmi::SpaceGroup &sg, double d_min);
    ~ModelStructureFactorsGPU();

    // Whether the GPU reproduces this case: the gather needs every atom's box narrower than the cell.
    bool Supported() const { return supported_; }
    // The device memory Reserve() takes: the grid and its transform, the solvent mask's labels, the cuFFT
    // work area and the reflections. The largest map Map() can be given shares the same buffers.
    size_t DeviceBytes() const { return device_bytes_; }
    double DMin() const { return d_min_; }
    int Device() const { return device_; }
    // The device's total memory, which DeviceBytes() is to be judged against.
    size_t DeviceTotalMemory() const { return ModelStructureFactorsGPUEngine::TotalMemory(device_); }
    // The grid the structure factors are computed on.
    std::array<int, 3> GridSize() const { return {setup_.grid.nu, setup_.grid.nv, setup_.grid.nw}; }
    std::array<int, 3> MapSizeBound() const { return map_size_; }

    // Reserves the device memory. Throws JFJochException on a CUDA failure.
    void Reserve();

    // F_calc and F_mask of `model` - the model this was made for, its atoms anywhere - as model validation's
    // compute_model_factors() makes them: prepare_asu_data(d_min, blur) of the density and
    // prepare_asu_data(d_min) of the mask. Throws JFJochException on a CUDA failure. Safe to call from
    // several threads; they take turns.
    void Compute(const gemmi::Model &model, gemmi::AsuData<std::complex<float>> &fcalc,
                 gemmi::AsuData<std::complex<float>> &fmask);

    // The real-space map of ASU coefficients on this engine's reflections, as model validation's
    // map_from_coefficients() makes it: on the grid get_size_for_hkl(coef, {0, 0, 0}, 3.0) sizes. Sorts
    // `coef`. Throws JFJochException on a CUDA failure. Safe to call from several threads; they take turns.
    gemmi::Grid<float> Map(gemmi::AsuData<std::complex<float>> &coef);

private:
    int device_;
    gemmi::UnitCell cell_;
    const gemmi::SpaceGroup *sg_;
    double d_min_;
    gemmi::DensityCalculator<gemmi::IT92<float>, float> dc_;
    ModelStructureFactorsGPUSetup setup_;
    std::vector<gemmi::Miller> rows_;
    std::array<int, 3> map_size_{};
    bool supported_ = false;
    size_t fft_work_bytes_ = 0, device_bytes_ = 0;
    std::unique_ptr<ModelStructureFactorsGPUEngine> engine_;
    std::mutex m_;
};