1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 256 257 258 259 260 261 262 263 264 265 266 267 268 269 270 271 272 273 274 275
// #![feature(test)] //! # Overview //! Here is the [description](http://www.andrew.cmu.edu/user/feenstra/wavetrans/) of the WAVECAR //! file structure. //! //! ```no //! Record-length #spin components RTAG(a value specifying the precision) //! #k-points #bands ENCUT(maximum energy for plane waves) //! LatVec-A //! LatVec-B //! LatVec-C //! Loop over spin //! Loop over k-points //! #plane waves, k vector //! Loop over bands //! band energy, band occupation //! End loop over bands //! Loop over bands //! Loop over plane waves //! Plane-wave coefficient //! End loop over plane waves //! End loop over bands //! End loop over k-points //! End loop over spin //! ``` //! //! # Meta information //! The meta information contains two records (see the record concept in fortran's //! [unformatted io action](https://docs.oracle.com/cd/E19957-01/806-3593/2_io.html)). //! //! The first record only contains //! ```no //! RECL, NSPIN, RTAG //! ``` //! corresponding to record-length, number of spin components, precision tag. Though these three //! values are integer, they are stored in float64. //! //! Here is how we treat RTAG: //! ```text //! let prec_type = match RTAG { //! 45200 => Complex32, //! 45210 => Complex64, //! 53300 => Err("Unsupported WAVECAR format: VASP5 with f32") //! 53310 => Err("Unsupported WAVECAR format: VASP5 with f64") //! _ => Err("Invalid WAVECAR format: Unknown VASP version") //! }; //! ``` //! //! The second record contains some more information: //! ```no //! NKPTS, NBANDS, ENCUT, LATT, EFERMI //! ``` //! corresponding to number k-points, number of bands in each k-point, energy cutoff, lattice //! vectors in real space (3x3 matrix), fermi energy (in vasp 5 and higher). NKPTS and NBANDS are //! casted from float64 to integer when reading. ENCUT, LATT and EFERMI are originally float64 value //! or matrix. //! //! Here LATT is stored in row-major, which means in memory, it should be: //! ```text //! LATT[0][0], LATT[0][1], LATT[0][2], //! LATT[1][0], LATT[1][1], LATT[1][2], //! LATT[2][0], LATT[2][1], LATT[2][2], //! ``` //! //! **Note: Meta information or header is stored in float64 for all the WAVECARs. The main wavefunction //! coefficients are stored in either float32 or float64 determined by `RTAG` in meta information.** //! //! # Body //! //! The body content starts at the third record. In this part, band eigen value, fermi weight and //! band coefficients are stored. //! //! Here is the structure, from the third record: //! ```text //! for ispin in 0..NSPIN { //! for ikpoint in 0..NKPTS { //! // One record here 1) //! for iband in 0..NBANDS { //! // One record here 2) //! } //! } //! } //! ``` //! //! 1) There are _4 + 3*NBANDS_ values here: //! 1) NPLWS -> number of plane waves (number of coefficients) in this k-point, need to be casted //! into integer; //! 2) KVEC -> k-vector for current k-point, three float64 values; //! 3) The next _3*NBANDS_ values makes up a _NBANDS * 3_ matrix, where first two rows mean the //! eigen values for each band and the last row means the fermi-weight (aka fermi occupation); //! ```text //! band[0].real, band[0].imaginary, fermi_weight[0]; //! band[1].real, band[1].imaginary, fermi_weight[1]; //! band[2].real, band[2].imaginary, fermi_weight[2]; //! ... ... ... //! ``` //! //! 2) This part **dominates the WAVECAR**. There are _NBANDS_ records here. Each records contains //! _NPLWS_ planewave coefficients, and the type of coefficients is either complexf32 or //! complex64, determined by _RTAG_; //! ```notrust //! coeff[0], coeff[1], coeff[2], ... // NPLWS values in total //! ``` //! //! To sum up, the number of total records in WAVECAR should be `2 + NSPIN * NKPTS * (1 + NBANDS)`. //! //! However, for the calculations that enables spin orbits coupling correction, `NSPIN = 1`, but on //! each band, two spinor components (equal length) are stored, where the upper and the lower is //! are placed in order. //! ```text //! // on each band, spinor up //! coeffs[0], coeffs[1], ... //! // spinor down //! coeffs[0], coeffs[1], ... //! ``` //! //! **This crate only works on little endian machine. You can patch it if you have some feature //! requests on big endian machine, that's not difficult (changing all the LittleEndian generic //! parameter to BigEndian shall do the job).** //! //! //! # Implementation of transformation of wavefunction in k-space into real-space //! We've got the band coefficients, but how to use it? What should we do if we want to visualize it in //! real space? The relation between k-space and real space is the Fourier transformation. But in which //! order is the coefficients placed? //! //! ## FFT grid generation for standard & SOC system //! Wavefunction in k-space is a 3D grid, but we must start with 1D to illustrate how the grid is //! generated: //! //! Suppose we have a 1D grid whose size is _ngrid_, the 1D fft grid should be //! ```text //! [0, 1, 2, ... ngrid/2] ++ [(1+ngrid/2-ngrid), (ngrid/2-ngrid), ... -1] //! e.g. when ngrid = 11 //! ret = [0, 1, 2, 3, 4, 5, -5, -4, -3, -2, -1] //! ``` //! //! And for 3D grid, three directions does the same job //! ```text //! fx = generate_grid(ngrid[0]) //! fy = generate_grid(ngrid[1]) //! fz = generate_grid(ngrid[2]) //! ``` //! //! Then combine them (in Fortran, the inner index is the fastest one) //! ```text //! for ifz in fz { //! for ify in fy { //! for ifx in fx { //! fft_grid += [ifx, ify, ifz] //! }}} //! ``` //! Each coordinate `[ifx, ify, ifz]` in the above will be named with `G` in the following. //! //! Now we've a cube in k-space. However the valid wavefunction grid should be a sphere where the //! radius is determined by the formula `(G + k)^2 / 2 < ENCUT`, where `k` is the k-vector of current //! k-point. //! //! We've rubbed the k-space cube into a k-space sphere, and the order is consistent with //! coefficients in WAVECAR. For now, we cannot put the coefficients in the grid directly, and why //! and how do we do the job will be illustrated in the next section. //! //! Then the arrangement is done for standard and SOC systems. As for the gamma only system, the //! arrangement is somewhat more complicate. //! //! ## FFT grid generation for gamma only system //! //! First we need to perform a standard FFT grid generation, then filter the G points, i.e. cut the //! sphere and remove half of it. For gamma half of `x` direction: //! ```text //! fft_grid.iter() //! .filter(|[gx, gy, gz]| { //! (gx > 0) || //! ((gx == 0) && (gy > 0)) || //! ((gx == 0) && (gy == 0) && (gz >= 0) //! }) //! ``` //! And for `z` direction: //! ```text //! fft_grid.iter() //! .filter(|[gx, gy, gz]| { //! (gz > 0) || //! ((gz == 0) && (gy > 0)) || //! ((gz == 0) && (gy == 0) && (gx >= 0)) //! }) //! ``` //! //! ## Reverse Fourier transformation //! In VASP's implementation, the real space grid is at least double the size of k-space grid, which //! means `[rgx, rgy, rgz] = [kgx * 2, kgy * 2, kgz * 2]`. But we also can specify finer grid to //! reach better accuracy. Here we follow the VASP's implementation, and take `ngrid` as the user //! customized real-space grid. //! //! Still remember that there are negative indices in FFT grids? That negative index means count from //! tail. //! ```text //! let v = [0, 1, 2, 3, 4, 5, 6]; // len = 7 //! v[0] == 0; //! v[1] == 1; //! //! v[-1] == 6; //! v[-2] == 5; //! ``` //! We can transform the negative indices into positive indices via `idx_pos = idx_neg.rem_euclid(len)` //! where `len` is length of the dimension where index refers. Go back to our 3D k-space grid, the `len` //! should be the length of corresponding dimension of user customized k-grid. //! //! Now we can put the coefficients on the real gird. //! ```text //! kgrid[0, 0, 0] = coeff[0]; //! kgrid[1, 0, 0] = coeff[1]; //! kgrid[2, 0, 0] = coeff[2]; //! ... //! ``` //! //! If the system is standard of SOC, a simple reverse Fourier transformation would lead to the //! real space grid. //! ```text //! rgrid = ifft(kgrid) //! ``` //! But for gamma only system, there is still a little job to do: //! //! Because gamma only version only stores half of the sphere, the reverse Fourier transformation //! is `irfft` (aka complex to real reverse Fourier transformation). This means that we must use a //! half of the grid to store the coefficients. //! //! For `z` direction, `kgrid.shape[2] = rgrid.shape[2]/2 + 1` //! ```text //! for fx in gxs { //! for fy in gys { //! if (fy > 0 || (fy == 0 && fx >=0)) continue; //! kgrid[fx, fy, 0] = kgrid[-fx, -fy, 0].conjugate() //! } //! } //! ``` //! //! For 'x' direction, `kgrid.shape[0] = rgrid,shape[0]/2 + 1` //! ```text //! for fy in gys { //! for fz in gzs { //! if (fy > 0 || (fy == 0 && fz >= 0) continue; //! kgrid[0, fy, fz] = kgrid[0, -fy, -fz].conjugate() //! } //! } //! ``` //! //! Then `rgrid = irfft(kgrid)` can produce the right result. //! //! # Visualize the wavefunction in real space //! //! Just take the `rgrid` and save in CHGCAR format and visualize it via //! [VESTA](https://jp-minerals.org/vesta/jp/). //! //! # Acknowledgement //! //! - [Qijing Zheng](https://github.com/QijingZheng/VaspBandUnfolding/blob/master/vaspwfc.py); //! - [ExpHP](https://github.com/ExpHP/vasp-poscar); //! - Other guys from the [group](https://t.me/rust_zh). pub use error::WavecarError; pub use wavecar::Wavecar; pub use wavecar::WavecarType; pub use wavecar::WFPrecisionType; pub use wavecar::GammaHalfDirection; pub use wavefunction::Wavefunction; mod error; mod wavecar; mod wavefunction; mod constants; mod binary_io; mod fft; mod utils;