# Electron-phonon tutorial¶

## Electron-Phonon interaction and superconducting properties of Al.¶

This tutorial demonstrates how to obtain the following physical properties, for a metal:

• the phonon linewidths (inverse lifetimes) due to the electron-phonon interaction
• the Eliashberg spectral function
• the electron-phonon coupling strength
• the McMillan critical temperature
• the resistivity and electronic part of the thermal conductivity

Here you will learn to use the electron-phonon coupling part of the anaddb utility. This implies a preliminary calculation of the electron-phonon matrix elements and phonon frequencies and eigenvectors, from a standard ABINIT phonon calculation, which will be reviewed succinctly.

Important

All the necessary input files to run the examples can be found in the ~abinit/tests/ directory where ~abinit is the absolute path of the abinit top-level directory.

To execute the tutorials, you are supposed to create a working directory (Work*) and copy there the input files and the files file of the lesson.

The files file ending with _x (e.g. tbase1_x.files) must be edited every time you start to use a new input file. You will discover more about the files file in section 1.1 of the help file.

To make things easier, we suggest to define some handy environment variables by executing the following lines in the terminal:

export ABI_HOME=Replace_with_the_absolute_path_to_the_abinit_top_level_dir

export ABI_TESTS=$ABI_HOME/tests/ export ABI_TUTORIAL=$ABI_TESTS/tutorial/           # Files for base1-2-3-4, GW ...
export ABI_TUTORESPFN=$ABI_TESTS/tutorespfn/ # Files specific to DFPT tutorials. export ABI_TUTOPARAL=$ABI_TESTS/tutoparal/         # Tutorials about parallel version
export ABI_TUTOPLUGS=$ABI_TESTS/tutoplugs/ # Examples using external libraries. export ABI_PSPDIR=$ABI_TESTS/Psps_for_tests/       # Pseudos used in examples.

export PATH=$ABI_HOME/src/98_main/:$PATH


The examples in this tutorial will use these shell variables so that one can easily copy and paste the code snippets into the terminal (remember to set ABI_HOME first!)

The last line adds the directory containing the executables to your PATH so that one can invoke the code by simply typing abinit in the terminal instead of providing the absolute path.

Finally, to run the examples in parallel with e.g. 2 MPI processes, use mpirun (mpiexec) and the syntax:

mpirun -n 2 abinit < files_file > log 2> err


The standard output of the application is redirected to log while err collects the standard error (runtime error messages, if any, are written here).

This tutorial should take about 1 hour.

Visualisation tools are NOT covered in this tutorial. Powerful visualisation procedures have been developed in the Abipy context, relying on matplotlib. See the README of Abipy and the Abipy tutorials.

## 1 Calculation of the ground state and phonon structure of fcc Al¶

Before beginning, you might consider making a different subdirectory to work in. Why not create Work_eph in $ABI_TUTORESPFN/Input? It is presumed that the user has already followed the Tutorials RF1 and RF2, and understands the calculation of ground state and response (phonon using density-functional perturbation theory (DFPT)) properties with ABINIT. The file teph_1.files lists the file names and root names for the first run (GS+perturbations). You can copy it to the working directory. You can also copy the file teph_1.in to your working directory. cd$ABI_TUTORESPFN/Input
mkdir Work_eph
cd Work_eph
cp ../teph_1.file .
cp ../teph_1.in .


You can immediately start this run - the input files will be examined later…

abinit < teph_1.files > log 2> err &


### Dataset Structure and Flow¶

The teph_1.in file contains a number of datasets (DS). These will perform the ground state (DS 1), then the phonon perturbations (DS 2-4), for a cell of FCC aluminium. The DDK perturbation (DS 5) is also calculated, and will be used to obtain the Fermi velocities for the transport calculations in Section 6.

Once these are done, abinit calculates the wave functions on the full grid of k-points (using kptopt=3) in DS 6: these will be used to calculate the electron-phonon matrix elements. In a full calculation the density of k-points should be increased significantly here and for the following datasets. For DS 1-5 only the normal convergence of the phonon frequencies should be ensured. In DS 7-10 only the matrix elements are calculated, for the electron-phonon coupling and for the DDK (position/momentum matrix elements), on the dense and complete grid of k-points from DS 6. Note that the separation of the matrix element calculation is new from version 7.6.

The important variable for electron-phonon coupling calculations is prtgkk This prints out files suffixed GKK, which contain the electron-phonon matrix elements. The matrix elements only depend on the self-consistent perturbed density (files suffixed 1DENx), which we get from DS 2-4 (linked by variable get1den). These can therefore be calculated on arbitrarily dense k-point meshes. Even better, only a single step is needed, since no self-consistency is required. To enforce the calculation of all the matrix elements on all k-points, symmetries are disabled when prtgkk is set to 1, so be sure not to use it during the normal self-consistent phonon runs DS 2-4. Again this is very different from versions before 7.6.

### Convergence¶

The calculation is done using minimal values of a number of parameters, in order to make it tractable in a time appropriate for a tutorial. The results will be completely unconverged, but by the end of the tutorial you should know how to run a full electron phonon calculation, and be able to improve the convergence on your own.

Edit the file teph_1.in. We now examine several variables. The kinetic energy cutoff ecut is a bit low, and the number of k-points (determined by ngkpt) is much too low. Electron-phonon calculations require a very precise determination of the Fermi surface of the metal. This implies a very dense k-point mesh, and the convergence of the grid must be checked. In our case, for Al, we will use a (non-shifted) 4x4x4 k-point grid, but a converged calculation needs more than 16x16x16 points. This will be re-considered in section 5. The q-point grid will be 2x2x2. It must be a sub-grid of the full k-point grid, and must contain the Γ point.

The value of acell is fixed to a rounded value from experiment. It, too, should be converged to get physical results (see Tutorial 3).

Note that the value of 1.0E-14 for tolwfr is tight, and should be even lower (down to 1.0E-20 or even 1.0E-22). This is because the wavefunctions will be used later explicitly in the matrix elements for ANADDB, as opposed to only energy values or densities, which are averages of the wavefunctions and eigenenergies over k-points and bands. Electron-phonon quantities are delicate sums of a few of these small matrix elements (those near the Fermi surface), so each matrix element must be accurate. You can however set prtwf to 0 in the phonon calculations, and avoid saving huge perturbed wavefunction files to disk (you only need to keep the ground state wave functions, with prtwf1 1).

### Execution¶

Run the first input (a few seconds on a recent PC), and you should obtain a value of

 etotal -2.0828579336121 Ha


for the energy at the end of DATASET 1. The following datasets calculate the second order energy variations under atomic displacement in the three reduced directions of the fcc unit cell. This is done for three different phonons, Gamma, (½,0,0), and X=(½,½,0), which generate the 2x2x2 q-point grid (take care with the reduced coordinates of the reciprocal space points! They are not along cartesian directions, but along the reciprocal space lattice vectors.). The whole calculation follows the same lines as Tutorial RF1. As an example, DATASET 3 calculates the perturbed wavefunctions at k+q, for k in the ground state k-point mesh, and q=(½,0,0). Then, DATASET 3 calculates

 2DTE 0.80951882353353


for the second-order energy variation for movement of the (unique) atom along the first reduced direction for q=(½,0,0). The main differences with Tutorial RF1 are that Given we are dealing with a metal, no perturbation wrt electric fields is considered ; However, if you want to do transport calculations, you need the ddk calculation anyway, to get the electron band velocities. This is added in dataset 5. In the standard case, ABINIT uses symmetry operations and non-stationary expressions to calculate a minimal number of 2DTE for different mixed second derivatives of the total energy. In our case we use the first derivatives, and they must all be calculated explicitly.

You are now the proud owner of 9 first-order matrix element files (suffixed _GKKx), corresponding to the three directional perturbations of the atom at each of the three q-points. The _GKK files contain the matrix elements of the electron-phonon interaction, which we will extract and use in the following. Besides the _GKK files there are the _DDB files for each perturbation which contain the 2DTE for the different phonons wavevectors q.

## 2 Merging of the 2DTE DDB files using MRGDDB¶

You can copy the following content to a file teph_2.in within your working directory:

teph_2.ddb.out
Total ddb for Al FCC system
3
teph_1o_DS2_DDB
teph_1o_DS3_DDB
teph_1o_DS4_DDB


or use

This is your input file for the MRGDDB utility, which will take the different _DDB files and merge them into a single one which ANADDB will use to determine the phonon frequencies and eigenvectors. teph_2.in contains the name of the final file, a comment line, then the number of _DDB files to be merged and their names. mrgddb is run with the command

 mrgddb < teph_2.in


It runs in a few seconds.

ANADDB takes a files file, just like ABINIT, which tells it where to find the input, ddb, and gkk files, and what to name the output, thermodynamical output, and electron phonon output files. $ABI_TUTORESPFN/Input/teph_4.files is your files file for ANADDB. You can edit it now. The new variables are at the head of the file: # turn on calculation of the electron-phonon quantities elphflag 1 # Path in reciprocal space along which the phonon linewidths # and band structure will be calculated nqpath 7 qpath 0.0 0.0 0.0 1/2 1/2 0.0 1 1 1 1/2 1/2 1/2 1/2 1/2 0.0 1/2 3/4 1/4 1/2 1/2 1/2 # Coulomb pseudopotential parameter mustar 0.136  elphflag is a flag to turn on the calculation of the electron- phonon quantities. The first quantities which will be calculated are the phonon linewidths along a path in reciprocal space (exactly like the band structure in the tutorial 3. The path is specified by the variable qpath giving the apexes of the path in reciprocal space, which are usually special points of high symmetry. The number of points is given by nqpath. Note that qpath can be used in normal phonon band structure calculations as well, provided that qph1l is omitted from the input file (the latter overrides qpath). The phonon linewidths are printed to a file suffixed _LWD. The phonon linewidths are proportional to the electron phonon coupling, and still depend on the phonon wavevector q. The other electron-phonon calculations which are presently implemented in ANADDB, in particular for superconductivity, determine isotropic quantities, which are averaged over the Fermi surface and summed over q-points. Integrating the coupling over reciprocal space, but keeping the resolution in the phonon mode’s energy, one calculates the Eliashberg spectral function $\alpha^2F$. The $\alpha^2F$ function is similar to the density of states of the phonons, but is weighted according to the coupling of the phonons to the electrons. It is output to a file with suffix _A2F, which is ready to be represented using any graphical software (Xmgr, matlab, OpenDX…). The first inverse moment of $\alpha^2F$ gives the global coupling strength, or mass renormalization factor, $\lambda$. From $\lambda$, using the McMillan formula as modified by Allen and Dynes ANADDB calculates the critical temperature for superconductivity. The formula contains an adjustable parameter $\mu^{\star}$ which approximates the effect of Coulomb interactions, and is given by the input variable mustar. For Al with the k-point grid given and a value of $\mu^{\star}$=0.136 the ANADDB output file shows the following values  mka2f: lambda <omega^2> = 8.891284E-07 mka2f: lambda <omega^3> = 7.757272E-10 mka2f: lambda <omega^4> = 8.715049E-13 mka2f: lambda <omega^5> = 1.108658E-15 mka2f: isotropic lambda = 8.337444E+00 mka2f: omegalog = 1.769558E-04 (Ha) 5.587816E+01 (Kelvin) mka2f: input mustar = 1.360000E-01 -mka2f: MacMillan Tc = 4.038730E-05 (Ha) 1.275329E+01 (Kelvin)  As expected, this is a fairly bad estimation of the experimental value of 1.2 K. The coupling strength is severely overestimated (experiment gives 0.44), and the logarithmic average frequency is too low, but not nearly enough to compensate $\lambda$. Aluminum is a good case in which things can be improved, easily because its Fermi surface is isotropic and the coupling is weak. ## 5 Convergence tests of the integration techniques¶ In section 4, we used the default method for integration on the Fermi surface, which employs a smearing of the DOS and attributes Gaussian weights to each k-point as a function of its distance from the Fermi surface. Another efficient method of integration in k-space is the tetrahedron method, which is also implemented in ANADDB, and can be used by setting telphint = 0. In this case the k-point grid must be specified explicitly in the input, repeating the variable kptrlatt from the ABINIT output, so that ANADDB can re-construct the different tetrahedra which fill the reciprocal unit cell. In the Gaussian case, the width of the smearing can be controlled using the input variable elphsmear. To test our calculations, they should be re-done with a denser k-point grid and a denser q-point grid, until the results ($\alpha^2F$ or $\lambda$) are converged. The value of elphsmear should also be checked, to make sure that it does not affect results. Normally, the limit for a very small elphsmear and a very dense k-point grid is the same as the value obtained with the tetrahedron method (which usually converges with a sparser k-point grid). Edit input file$ABI_TUTORESPFN/Input/teph_5.in and you will see the main difference with teph_4.in is the choice of the tetrahedron integration method.

If you are patient, save the output _LWD and _A2F files and run the full tutorial again with a denser k-point grid (say, 6x6x6) and you will be able to observe the differences in convergence.

## 6 Transport quantities within Boltzmann theory¶

The electron-phonon interaction is also responsible for the resistivity of normal metals and related phenomena. Even in a perfect crystal, interaction with phonons will limit electron life times (and vice versa). This can be calculated fairly simply using the Boltzmann theory of transport with first order scattering by phonons (see, e.g., “Electrons and Phonons” by Ziman).

The additional ingredient needed to calculate transport quantities (electrical resistivity, heat conductivity limited by electron-phonon coupling) is the Fermi velocity, i.e. the group velocity of a wavepacket of electrons placed at the Fermi surface. This is the “true” velocity the charge will move at, once you have displaced the Fermi sphere a little bit in k space (see, e.g. Ashcroft and Mermin as well). The velocity can be related simply to a commutator of the position, which is also used for dielectric response, using a DDK calculation (see the first DFPT tutorial (DFPT1). The phonon calculation at Gamma need not include the electric field (this is a metal after all, so the effect on the phonons should be negligible), but we need an additional dataset to calculate the 3 DDK files along the 3 primitive directions of the unit cell. To be more precise, just as for the el-ph matrix elements, we do not need the perturbed wavefunctions, only the perturbed eigenvalues. Calculating the DDK derivatives with prtgkk set to 1 will output files named _GKKxx (xx=3*natom+1 to 3*natom+3) containing the matrix elements of the ddk perturbation (these are basically the first part of the normal DDK files for E field perturbation, without the wave function coefficients).

The anaddb “files” file must specify where the ddk files are, so anaddb can calculate the Fermi velocities. It actually reads:

teph_6.in
teph_6.out
teph_2.ddb.out
moldyn
teph_3o_GKK.bin
teph.ep
teph_6.ddk


where the last line is the name of a small file listing the 3 DDK files to be used:

teph_1_DS5_GKK4
teph_1_DS5_GKK5
teph_1_DS5_GKK6


The abinit input file teph_1.in already obtained the DDK files from the additional dataset, DS5, with the following lines of teph_1.in:

tolwfr5 1.0d-14
qpt5 0 0 0
rfphon5 0
rfelfd5 2


Copy the additional .ddk file from the tests/tutorespfn/Inputs directory, and run anaddb with the new “files” file. The input for teph_6 has added to teph_5.in the following 2 lines:

ifltransport 1
ep_keepbands 1


see

and has produced a number of additional files:

• _A2F_TR contain the equivalent Eliashberg spectral functions with Fermi speed factors (how many phonons do we have at a given energy, how much do they couple with the electrons, and how fast are these electrons going). Integrating with appropriate functions of the phonon energy, one gets:
• the resistivity as a function of temperature (teph_6.out_ep_RHO and figure) and
• the thermal conductivity as a function of temperature (teph_6.out_ep_WTH) but ONLY the electronic contribution. You are still missing the phonon-phonon interactions, which are the limiting factor in the thermal conductivity beyond a few 100 K. For metals at even higher temperature the electrons will often dominate again as they contain more degrees of freedom.

The high T behavior is necessarily linear if you include only first order e-p coupling and neglect the variation of the GKK off of the Fermi surface. The inset shows the low T behavior, which is not a simple polynomial (with simple models it should be T^3 or T^5 - see Ashcroft and Mermin). See the Savrasov paper above for reference values in simple metals using well converged k- and q- point grids.

Finally, note that the _RHO and _WTH files contain a series of tensor components, for the resistivity tensor (2 1 = y x or the current response along y when you apply an electric field along x). In most systems the tensor should be diagonal by symmetry, and the value of off-diagonal terms gives an estimate of the numerical error.