leonarski_fandClaude Opus 5.5
9ad92b6bfe
A pure move. ModelValidation, RigidBodyRefine, RigidBodyGPU, ModelFFT, ModelGrid, ModelScaling, ModelMaskGPU, ModelScaleGPU and SigmaA - everything that works on an atomic model - become the JFJochStructureRefinement library, linked by JFJochImageAnalysis. WriteModel (the placed-model mmCIF/PDB writer) goes to writer/ as its own small JFJochModelWriter target, so JFJochWriter, which a writer-only build compiles, does not gain a gemmi dependency. Only include paths and CMake lists change. Co-Authored-By: Claude Opus 5.5 (1M context) <noreply@anthropic.com> Claude-Session: https://claude.ai/code/session_01SVmAWnzCmRKAXVUCdc4iNi
25 lines
1.5 KiB
C
25 lines
1.5 KiB
C
// SPDX-FileCopyrightText: 2026 Filip Leonarski, Paul Scherrer Institute <filip.leonarski@psi.ch>
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// SPDX-License-Identifier: GPL-3.0-only
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#pragma once
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#include "gemmi/grid.hpp"
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#include "gemmi/recgrid.hpp"
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// The structure factors of a real-space map on the model path (Fcalc from the model density, Fmask
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// from the bulk-solvent mask): what gemmi::transform_map_to_f_phi(map, true) returns - the
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// conjugated forward transform (F = sum rho exp(+2 pi i h.x)) scaled by V/N, kept for l >= 0 on an (nu, nv, nw/2+1) grid in the map's own XYZ order,
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// ready for prepare_asu_data() - computed with FFTW rather than gemmi's single-threaded pocketfft.
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// The same transform, not the same bits: the two libraries order their arithmetic differently.
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//
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// Plans are FFTW_ESTIMATE only - MEASURE would time candidate algorithms and could pick a different
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// one from run to run - and made once per grid size and kept, so the rigid body's hundred-odd
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// evaluations on one grid plan once. Safe to call from several threads at once.
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gemmi::FPhiGrid<float> MapToFPhi(const gemmi::Grid<float> &map);
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// The inverse: the real-space map of an (nu, nv, nw/2+1) half-l coefficient grid in XYZ order, as
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// get_f_phi_on_grid() fills it - what gemmi::transform_f_phi_grid_to_map() returns (rho = 1/V sum F
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// exp(-2 pi i h.x) on an (nu, nv, 2*(nw-1)) grid, NaN coefficients read as zero), computed with FFTW
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// under the same planning rules.
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gemmi::Grid<float> MapFromFPhi(const gemmi::FPhiGrid<float> &hkl);
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