[Wannier] Principle layers

Mostofi, Arash a.mostofi at imperial.ac.uk
Thu May 18 11:22:37 CEST 2017


Dear Haicheng,
From the output file that you sent to me separately, you have not managed to obtain well-localised Wannier functions in the first place (i.e., even before reaching the transport part of the code). First you need to focus on this. Your system is quite large and complicated (almost 500 WFs), so I would encourage you to start with a simpler version (maybe a narrow nanoribbon with a single vacancy / substitutional defect) in order to get a better feel for how to obtain localised WFs in this sort of system before trying the full system that you are interested in.
With best wishes,
Arash

—
Arash Mostofi — www.mostofigroup.org<http://www.mostofigroup.org>
Director, CDT in Theory and Simulation of Materials
Imperial College London



On 16 May 2017, at 16:17, Haichang Lu <hl432 at cam.ac.uk<mailto:hl432 at cam.ac.uk>> wrote:

Dear All,
To make thing clear, attached is the atomic structure and wout file.
I want to use 2 unit cells of Graphene nanoribbon as left and right lead.

Thanks
            +---------------------------------------------------+
            |                                                   |
            |                   WANNIER90                       |
            |                                                   |
            +---------------------------------------------------+
            |                                                   |
            |        Welcome to the Maximally-Localized         |
            |        Generalized Wannier Functions code         |
            |            http://www.wannier.org                 |
            |                                                   |
            |  Wannier90 v2.x Authors:                          |
            |    Arash A. Mostofi  (Imperial College London)    |
            |    Giovanni Pizzi    (EPFL)                       |
            |    Ivo Souza         (Universidad del Pais Vasco) |
            |    Jonathan R. Yates (University of Oxford)       |
            |                                                   |
            |  Wannier90 Contributors:                          |
            |    Young-Su Lee       (KIST, S. Korea)            |
            |    Matthew Shelley    (Imperial College London)   |
            |    Nicolas Poilvert   (Penn State University)     |
            |    Raffaello Bianco   (Paris 6 and CNRS)          |
            |    Gabriele Sclauzero (ETH Zurich)                |
            |    David Strubbe (MIT, USA)                       |
            |    Rei Sakuma (Lund University, Sweden)           |
            |    Yusuke Nomura (U. Tokyo, Japan)                |
            |    Takashi Koretsune (Riken, Japan)               |
            |    Yoshiro Nohara (ASMS Co. Ltd., Japan)          |
            |    Ryotaro Arita (Riken, Japan)                   |
            |    Lorenzo Paulatto (UPMC Paris)                  |
            |    Florian Thole (ETH Zurich)                     |
            |    Pablo Garcia Fernandez (Unican, Spain)         |
            |    Dominik Gresch (ETH Zurich)                    |
            |    Samuel Ponce (University of Oxford)            |
            |    Marco Gibertini (EPFL)                         |
            |    Christian Stieger (ETHZ, CH)                   |
            |    Stepan Tsirkin (Universidad del Pais Vasco)    |
            |                                                   |
            |  Wannier77 Authors:                               |
            |    Nicola Marzari    (EPFL)                       |
            |    Ivo Souza         (Universidad del Pais Vasco) |
            |    David Vanderbilt  (Rutgers University)         |
            |                                                   |
            |  Please cite                                      |
            |                                                   |
            |  [ref] "An updated version of Wannier90:          |
            |        A Tool for Obtaining Maximally Localised   |
            |        Wannier Functions", A. A. Mostofi,         |
            |        J. R. Yates, G. Pizzi, Y. S. Lee,          |
            |        I. Souza, D. Vanderbilt and N. Marzari,    |
            |        Comput. Phys. Commun. 185, 2309 (2014)     |
            |        http://dx.doi.org/10.1016/j.cpc.2014.05.003|
            |                                                   |
            |  in any publications arising from the use of      |
            |  this code. For the method please cite            |
            |                                                   |
            |  [ref] "Maximally Localized Generalised Wannier   |
            |         Functions for Composite Energy Bands"     |
            |         N. Marzari and D. Vanderbilt              |
            |         Phys. Rev. B 56 12847 (1997)              |
            |                                                   |
            |  [ref] "Maximally Localized Wannier Functions     |
            |         for Entangled Energy Bands"               |
            |         I. Souza, N. Marzari and D. Vanderbilt    |
            |         Phys. Rev. B 65 035109 (2001)             |
            |                                                   |
            |                                                   |
            | Copyright (c) 1996-2017                           |
            |        Arash A. Mostofi, Jonathan R. Yates,       |
            |        Young-Su Lee, Giovanni Pizzi, Ivo Souza,   |
            |        David Vanderbilt and Nicola Marzari        |
            |                                                   |
            |        Release: 2.1.0   13th January 2017         |
            |                                                   |
            | This program is free software; you can            |
            | redistribute it and/or modify it under the terms  |
            | of the GNU General Public License as published by |
            | the Free Software Foundation; either version 2 of |
            | the License, or (at your option) any later version|
            |                                                   |
            | This program is distributed in the hope that it   |
            | will be useful, but WITHOUT ANY WARRANTY; without |
            | even the implied warranty of MERCHANTABILITY or   |
            | FITNESS FOR A PARTICULAR PURPOSE. See the GNU     |
            | General Public License for more details.          |
            |                                                   |
            | You should have received a copy of the GNU General|
            | Public License along with this program; if not,   |
            | write to the Free Software Foundation, Inc.,      |
            | 675 Mass Ave, Cambridge, MA 02139, USA.           |
            |                                                   |
            +---------------------------------------------------+
            |    Execution started on 16May2017 at 15:26:28     |
            +---------------------------------------------------+

******************************************************************************
* -> Using CODATA 2006 constant values                                       *
*    (http://physics.nist.gov/cuu/Constants/index.html)                      *
* -> Using Bohr value from CODATA                                            *
******************************************************************************


                                   ------
                                   SYSTEM
                                   ------

                             Lattice Vectors (Ang)
                   a_1    28.620869   0.000000   0.000000
                   a_2     0.000000  20.000000   0.000000
                   a_3     0.000000   0.000000  37.350000

                  Unit Cell Volume:   21379.78918  (Ang^3)

                       Reciprocal-Space Vectors (Ang^-1)
                   b_1     0.219532   0.000000   0.000000
                   b_2     0.000000   0.314159   0.000000
                   b_3     0.000000   0.000000   0.168225

*----------------------------------------------------------------------------*
|   Site       Fractional Coordinate          Cartesian Coordinate (Ang)     |
+----------------------------------------------------------------------------+
| H    1   0.79169   0.50000   0.08333   |   22.65885  10.00000   3.11251    |
| H    2   0.79132   0.50000   0.01837   |   22.64814  10.00000   0.68596    |
| H    3   0.77914   0.50000   0.56453   |   22.29976  10.00000  21.08512    |
| H    4   0.78971   0.50000   0.30588   |   22.60226  10.00000  11.42446    |
| H    5   0.78295   0.50000   0.42341   |   22.40861  10.00000  15.81437    |
| H    6   0.77829   0.50000   0.24587   |   22.27522  10.00000   9.18328    |
| H    7   0.21301   0.50000   0.35883   |    6.09666  10.00000  13.40233    |
| H    8   0.21061   0.50000   0.19885   |    6.02794  10.00000   7.42698    |
| H    9   0.79092   0.50000   0.13474   |   22.63678  10.00000   5.03262    |
| H   10   0.79169   0.50000   0.85663   |   22.65885  10.00000  31.99531    |
| H   11   0.79132   0.50000   0.79167   |   22.64814  10.00000  29.56876    |
| H   12   0.78971   0.50000   0.62974   |   22.60226  10.00000  23.52086    |
| H   13   0.78295   0.50000   0.74728   |   22.40861  10.00000  27.91077    |
| H   14   0.21301   0.50000   0.68270   |    6.09666  10.00000  25.49873    |
| H   15   0.21061   0.50000   0.97215   |    6.02794  10.00000  36.30978    |
| H   16   0.79092   0.50000   0.90804   |   22.63678  10.00000  33.91542    |
| H   17  -0.79169  -0.50000   0.08333   |  -22.65885 -10.00000   3.11251    |
| H   18  -0.79132  -0.50000   0.01837   |  -22.64814 -10.00000   0.68596    |
| H   19  -0.77914  -0.50000   0.56453   |  -22.29976 -10.00000  21.08512    |
| H   20  -0.78971  -0.50000   0.30588   |  -22.60226 -10.00000  11.42446    |
| H   21  -0.78295  -0.50000   0.42341   |  -22.40861 -10.00000  15.81437    |
| H   22  -0.77829  -0.50000   0.24587   |  -22.27522 -10.00000   9.18328    |
| H   23  -0.21301  -0.50000   0.35883   |   -6.09666 -10.00000  13.40233    |
| H   24  -0.21061  -0.50000   0.19885   |   -6.02794 -10.00000   7.42698    |
| H   25  -0.79092  -0.50000   0.13474   |  -22.63678 -10.00000   5.03262    |
| H   26  -0.79169  -0.50000   0.85663   |  -22.65885 -10.00000  31.99531    |
| H   27  -0.79132  -0.50000   0.79167   |  -22.64814 -10.00000  29.56876    |
| H   28  -0.78971  -0.50000   0.62974   |  -22.60226 -10.00000  23.52086    |
| H   29  -0.78295  -0.50000   0.74728   |  -22.40861 -10.00000  27.91077    |
| H   30  -0.21301  -0.50000   0.68270   |   -6.09666 -10.00000  25.49873    |
| H   31  -0.21061  -0.50000   0.97215   |   -6.02794 -10.00000  36.30978    |
| H   32  -0.79092  -0.50000   0.90804   |  -22.63678 -10.00000  33.91542    |
| C    1   0.67292   0.50000   0.03221   |   19.25943  10.00000   1.20289    |
| C    2   0.58606   0.50000   0.03226   |   16.77364  10.00000   1.20488    |
| C    3   0.58620   0.50000   0.07012   |   16.77766  10.00000   2.61909    |
| C    4   0.67301   0.50000   0.07018   |   19.26216  10.00000   2.62132    |
| C    5   0.75828   0.50000   0.06941   |   21.70257  10.00000   2.59257    |
| C    6   0.54298   0.50000   0.01364   |   15.54054  10.00000   0.50945    |
| C    7   0.71592   0.50000   0.01329   |   20.49032  10.00000   0.49622    |
| C    8   0.75807   0.50000   0.03259   |   21.69663  10.00000   1.21718    |
| C    9   0.54305   0.50000   0.08864   |   15.54261  10.00000   3.31074    |
| C   10   0.71618   0.50000   0.08902   |   20.49759  10.00000   3.32503    |
| C   11   0.62935   0.50000   0.08879   |   18.01258  10.00000   3.31618    |
| C   12   0.37075   0.50000   0.01387   |   10.61117  10.00000   0.51801    |
| C   13   0.71006   0.50000   0.56310   |   20.32247  10.00000  21.03178    |
| C   14   0.62545   0.50000   0.45910   |   17.90092  10.00000  17.14731    |
| C   15   0.54278   0.50000   0.56401   |   15.53477  10.00000  21.06584    |
| C   16   0.62683   0.50000   0.56648   |   17.94031  10.00000  21.15785    |
| C   17   0.66931   0.50000   0.51047   |   19.15617  10.00000  19.06609    |
| C   18   0.58387   0.50000   0.51099   |   16.71097  10.00000  19.08565    |
| C   19   0.67208   0.50000   0.14534   |   19.23565  10.00000   5.42861    |
| C   20   0.54237   0.50000   0.20165   |   15.52310  10.00000   7.53152    |
| C   21   0.58571   0.50000   0.14490   |   16.76347  10.00000   5.41205    |
| C   22   0.71259   0.50000   0.20313   |   20.39482  10.00000   7.58704    |
| C   23   0.58060   0.50000   0.40196   |   16.61729  10.00000  15.01313    |
| C   24   0.70665   0.50000   0.24119   |   20.22491  10.00000   9.00858    |
| C   25   0.62899   0.50000   0.12642   |   18.00211  10.00000   4.72193    |
| C   26   0.75283   0.50000   0.29679   |   21.54657  10.00000  11.08514    |
| C   27   0.67018   0.50000   0.40281   |   19.18106  10.00000  15.04500    |
| C   28   0.54427   0.50000   0.23964   |   15.57742  10.00000   8.95054    |
| C   29   0.75066   0.50000   0.40757   |   21.48465  10.00000  15.22274    |
| C   30   0.62592   0.50000   0.23874   |   17.91444  10.00000   8.91711    |
| C   31   0.54242   0.50000   0.34849   |   15.52441  10.00000  13.01618    |
| C   32   0.67090   0.50000   0.18307   |   19.20178  10.00000   6.83783    |
| C   33   0.71330   0.50000   0.35121   |   20.41521  10.00000  13.11778    |
| C   34   0.58502   0.50000   0.18265   |   16.74388  10.00000   6.82212    |
| C   35   0.62746   0.50000   0.20116   |   17.95851  10.00000   7.51328    |
| C   36   0.45706   0.50000   0.12632   |   13.08134  10.00000   4.71795    |
| C   37   0.71565   0.50000   0.12738   |   20.48250  10.00000   4.75782    |
| C   38   0.75706   0.50000   0.14805   |   21.66773  10.00000   5.52961    |
| C   39   0.75585   0.50000   0.18484   |   21.63300  10.00000   6.90394    |
| C   40   0.67292   0.50000   0.80551   |   19.25943  10.00000  30.08568    |
| C   41   0.58606   0.50000   0.80556   |   16.77364  10.00000  30.08768    |
| C   42   0.58620   0.50000   0.84342   |   16.77766  10.00000  31.50189    |
| C   43   0.67301   0.50000   0.84348   |   19.26216  10.00000  31.50412    |
| C   44   0.75828   0.50000   0.84271   |   21.70257  10.00000  31.47537    |
| C   45   0.54298   0.50000   0.78694   |   15.54054  10.00000  29.39225    |
| C   46   0.71592   0.50000   0.78659   |   20.49032  10.00000  29.37902    |
| C   47   0.75807   0.50000   0.80589   |   21.69663  10.00000  30.09998    |
| C   48   0.54305   0.50000   0.86194   |   15.54261  10.00000  32.19354    |
| C   49   0.71618   0.50000   0.86232   |   20.49759  10.00000  32.20783    |
| C   50   0.58060   0.50000   0.72582   |   16.61729  10.00000  27.10953    |
| C   51   0.75283   0.50000   0.62066   |   21.54657  10.00000  23.18154    |
| C   52   0.67018   0.50000   0.72668   |   19.18106  10.00000  27.14140    |
| C   53   0.75066   0.50000   0.73144   |   21.48465  10.00000  27.31914    |
| C   54   0.54242   0.50000   0.67236   |   15.52441  10.00000  25.11258    |
| C   55   0.71330   0.50000   0.67508   |   20.41521  10.00000  25.21418    |
| C   56   0.62935   0.50000   0.86209   |   18.01258  10.00000  32.19898    |
| C   57   0.37075   0.50000   0.78717   |   10.61117  10.00000  29.40081    |
| C   58   0.67208   0.50000   0.91865   |   19.23565  10.00000  34.31141    |
| C   59   0.54412   0.50000   0.97495   |   15.57310  10.00000  36.41432    |
| C   60   0.58571   0.50000   0.91820   |   16.76347  10.00000  34.29485    |
| C   61   0.71608   0.50000   0.97643   |   20.49482  10.00000  36.46984    |
| C   62   0.62899   0.50000   0.89973   |   18.00211  10.00000  33.60473    |
| C   63   0.67090   0.50000   0.95638   |   19.20178  10.00000  35.72063    |
| C   64   0.58502   0.50000   0.95596   |   16.74388  10.00000  35.70492    |
| C   65   0.63096   0.50000   0.97446   |   18.05851  10.00000  36.39608    |
| C   66   0.45706   0.50000   0.89962   |   13.08134  10.00000  33.60075    |
| C   67   0.71565   0.50000   0.90069   |   20.48250  10.00000  33.64062    |
| C   68   0.75706   0.50000   0.92135   |   21.66773  10.00000  34.41241    |
| C   69   0.75759   0.50000   0.95815   |   21.68300  10.00000  35.78673    |
| C   70  -0.67292  -0.50000   0.03221   |  -19.25943 -10.00000   1.20289    |
| C   71  -0.58606  -0.50000   0.03226   |  -16.77364 -10.00000   1.20488    |
| C   72  -0.58620  -0.50000   0.07012   |  -16.77766 -10.00000   2.61909    |
| C   73  -0.67301  -0.50000   0.07018   |  -19.26216 -10.00000   2.62132    |
| C   74  -0.75828  -0.50000   0.06941   |  -21.70257 -10.00000   2.59257    |
| C   75  -0.54298  -0.50000   0.01364   |  -15.54054 -10.00000   0.50945    |
| C   76  -0.71592  -0.50000   0.01329   |  -20.49032 -10.00000   0.49622    |
| C   77  -0.75807  -0.50000   0.03259   |  -21.69663 -10.00000   1.21718    |
| C   78  -0.54305  -0.50000   0.08864   |  -15.54261 -10.00000   3.31074    |
| C   79  -0.71618  -0.50000   0.08902   |  -20.49759 -10.00000   3.32503    |
| C   80  -0.62935  -0.50000   0.08879   |  -18.01258 -10.00000   3.31618    |
| C   81  -0.37075  -0.50000   0.01387   |  -10.61117 -10.00000   0.51801    |
| C   82  -0.71006  -0.50000   0.56310   |  -20.32247 -10.00000  21.03178    |
| C   83  -0.62545  -0.50000   0.45910   |  -17.90092 -10.00000  17.14731    |
| C   84  -0.54278  -0.50000   0.56401   |  -15.53477 -10.00000  21.06584    |
| C   85  -0.62683  -0.50000   0.56648   |  -17.94031 -10.00000  21.15785    |
| C   86  -0.66931  -0.50000   0.51047   |  -19.15617 -10.00000  19.06609    |
| C   87  -0.58387  -0.50000   0.51099   |  -16.71097 -10.00000  19.08565    |
| C   88  -0.67208  -0.50000   0.14534   |  -19.23565 -10.00000   5.42861    |
| C   89  -0.54237  -0.50000   0.20165   |  -15.52310 -10.00000   7.53152    |
| C   90  -0.58571  -0.50000   0.14490   |  -16.76347 -10.00000   5.41205    |
| C   91  -0.71259  -0.50000   0.20313   |  -20.39482 -10.00000   7.58704    |
| C   92  -0.58060  -0.50000   0.40196   |  -16.61729 -10.00000  15.01313    |
| C   93  -0.70665  -0.50000   0.24119   |  -20.22491 -10.00000   9.00858    |
| C   94  -0.62899  -0.50000   0.12642   |  -18.00211 -10.00000   4.72193    |
| C   95  -0.75283  -0.50000   0.29679   |  -21.54657 -10.00000  11.08514    |
| C   96  -0.67018  -0.50000   0.40281   |  -19.18106 -10.00000  15.04500    |
| C   97  -0.54427  -0.50000   0.23964   |  -15.57742 -10.00000   8.95054    |
| C   98  -0.75066  -0.50000   0.40757   |  -21.48465 -10.00000  15.22274    |
| C   99  -0.62592  -0.50000   0.23874   |  -17.91444 -10.00000   8.91711    |
| C  100  -0.54242  -0.50000   0.34849   |  -15.52441 -10.00000  13.01618    |
| C  101  -0.67090  -0.50000   0.18307   |  -19.20178 -10.00000   6.83783    |
| C  102  -0.71330  -0.50000   0.35121   |  -20.41521 -10.00000  13.11778    |
| C  103  -0.58502  -0.50000   0.18265   |  -16.74388 -10.00000   6.82212    |
| C  104  -0.62746  -0.50000   0.20116   |  -17.95851 -10.00000   7.51328    |
| C  105  -0.45706  -0.50000   0.12632   |  -13.08134 -10.00000   4.71795    |
| C  106  -0.71565  -0.50000   0.12738   |  -20.48250 -10.00000   4.75782    |
| C  107  -0.75706  -0.50000   0.14805   |  -21.66773 -10.00000   5.52961    |
| C  108  -0.75585  -0.50000   0.18484   |  -21.63300 -10.00000   6.90394    |
| C  109  -0.67292  -0.50000   0.80551   |  -19.25943 -10.00000  30.08568    |
| C  110  -0.58606  -0.50000   0.80556   |  -16.77364 -10.00000  30.08768    |
| C  111  -0.58620  -0.50000   0.84342   |  -16.77766 -10.00000  31.50189    |
| C  112  -0.67301  -0.50000   0.84348   |  -19.26216 -10.00000  31.50412    |
| C  113  -0.75828  -0.50000   0.84271   |  -21.70257 -10.00000  31.47537    |
| C  114  -0.54298  -0.50000   0.78694   |  -15.54054 -10.00000  29.39225    |
| C  115  -0.71592  -0.50000   0.78659   |  -20.49032 -10.00000  29.37902    |
| C  116  -0.75807  -0.50000   0.80589   |  -21.69663 -10.00000  30.09998    |
| C  117  -0.54305  -0.50000   0.86194   |  -15.54261 -10.00000  32.19354    |
| C  118  -0.71618  -0.50000   0.86232   |  -20.49759 -10.00000  32.20783    |
| C  119  -0.58060  -0.50000   0.72582   |  -16.61729 -10.00000  27.10953    |
| C  120  -0.75283  -0.50000   0.62066   |  -21.54657 -10.00000  23.18154    |
| C  121  -0.67018  -0.50000   0.72668   |  -19.18106 -10.00000  27.14140    |
| C  122  -0.75066  -0.50000   0.73144   |  -21.48465 -10.00000  27.31914    |
| C  123  -0.54242  -0.50000   0.67236   |  -15.52441 -10.00000  25.11258    |
| C  124  -0.71330  -0.50000   0.67508   |  -20.41521 -10.00000  25.21418    |
| C  125  -0.62935  -0.50000   0.86209   |  -18.01258 -10.00000  32.19898    |
| C  126  -0.37075  -0.50000   0.78717   |  -10.61117 -10.00000  29.40081    |
| C  127  -0.67208  -0.50000   0.91865   |  -19.23565 -10.00000  34.31141    |
| C  128  -0.54412  -0.50000   0.97495   |  -15.57310 -10.00000  36.41432    |
| C  129  -0.58571  -0.50000   0.91820   |  -16.76347 -10.00000  34.29485    |
| C  130  -0.71608  -0.50000   0.97643   |  -20.49482 -10.00000  36.46984    |
| C  131  -0.62899  -0.50000   0.89973   |  -18.00211 -10.00000  33.60473    |
| C  132  -0.67090  -0.50000   0.95638   |  -19.20178 -10.00000  35.72063    |
| C  133  -0.58502  -0.50000   0.95596   |  -16.74388 -10.00000  35.70492    |
| C  134  -0.63096  -0.50000   0.97446   |  -18.05851 -10.00000  36.39608    |
| C  135  -0.45706  -0.50000   0.89962   |  -13.08134 -10.00000  33.60075    |
| C  136  -0.71565  -0.50000   0.90069   |  -20.48250 -10.00000  33.64062    |
| C  137  -0.75706  -0.50000   0.92135   |  -21.66773 -10.00000  34.41241    |
| C  138  -0.75759  -0.50000   0.95815   |  -21.68300 -10.00000  35.78673    |
| C  139   0.50000   0.50000   0.06999   |   14.31043  10.00000   2.61423    |
| C  140   0.50000   0.50000   0.03225   |   14.31043  10.00000   1.20458    |
| C  141   0.50000   0.50000   0.29695   |   14.31043  10.00000  11.09112    |
| C  142   0.50000   0.50000   0.40432   |   14.31043  10.00000  15.10131    |
| C  143   0.50000   0.50000   0.14513   |   14.31043  10.00000   5.42079    |
| C  144   0.50000   0.50000   0.18271   |   14.31043  10.00000   6.82435    |
| C  145   0.50000   0.50000   0.84329   |   14.31043  10.00000  31.49703    |
| C  146   0.50000   0.50000   0.80555   |   14.31043  10.00000  30.08738    |
| C  147   0.50000   0.50000   0.62082   |   14.31043  10.00000  23.18752    |
| C  148   0.50000   0.50000   0.72819   |   14.31043  10.00000  27.19771    |
| C  149   0.50000   0.50000   0.91844   |   14.31043  10.00000  34.30359    |
| C  150   0.50000   0.50000   0.95601   |   14.31043  10.00000  35.70715    |
| N    1   0.54108   0.50000   0.42131   |   15.48626  10.00000  15.73584    |
| N    2   0.66850   0.50000   0.58372   |   19.13305  10.00000  21.80198    |
| N    3   0.66694   0.50000   0.47591   |   19.08847  10.00000  17.77511    |
| N    4   0.54393   0.50000   0.52897   |   15.56762  10.00000  19.75685    |
| N    5   0.58457   0.50000   0.47606   |   16.73087  10.00000  17.78066    |
| N    6   0.71058   0.50000   0.52764   |   20.33731  10.00000  19.70737    |
| N    7   0.71052   0.50000   0.42322   |   20.33577  10.00000  15.80722    |
| N    8   0.58476   0.50000   0.58429   |   16.73633  10.00000  21.82330    |
| N    9   0.62690   0.50000   0.53025   |   17.94238  10.00000  19.80502    |
| N   10   0.62584   0.50000   0.42102   |   17.91213  10.00000  15.72520    |
| N   11   0.75062   0.50000   0.58107   |   21.48328  10.00000  21.70308    |
| N   12   0.66595   0.50000   0.25818   |   19.05998  10.00000   9.64312    |
| N   13   0.54166   0.50000   0.31320   |   15.50279  10.00000  11.69808    |
| N   14   0.67191   0.50000   0.36731   |   19.23059  10.00000  13.71894    |
| N   15   0.71498   0.50000   0.31596   |   20.46321  10.00000  11.80107    |
| N   16   0.58300   0.50000   0.36640   |   16.68585  10.00000  13.68520    |
| N   17   0.58465   0.50000   0.25673   |   16.73321  10.00000   9.58884    |
| N   18   0.75521   0.50000   0.37131   |   21.61487  10.00000  13.86829    |
| N   19   0.74826   0.50000   0.26058   |   21.41591  10.00000   9.73268    |
| N   20   0.54108   0.50000   0.74517   |   15.48626  10.00000  27.83224    |
| N   21   0.71052   0.50000   0.74708   |   20.33577  10.00000  27.90362    |
| N   22   0.62584   0.50000   0.74489   |   17.91213  10.00000  27.82160    |
| N   23   0.54166   0.50000   0.63707   |   15.50279  10.00000  23.79448    |
| N   24   0.67191   0.50000   0.69117   |   19.23059  10.00000  25.81534    |
| N   25   0.71498   0.50000   0.63983   |   20.46321  10.00000  23.89747    |
| N   26   0.58300   0.50000   0.69027   |   16.68585  10.00000  25.78160    |
| N   27   0.75521   0.50000   0.69517   |   21.61487  10.00000  25.96469    |
| N   28  -0.54108  -0.50000   0.42131   |  -15.48626 -10.00000  15.73584    |
| N   29  -0.66850  -0.50000   0.58372   |  -19.13305 -10.00000  21.80198    |
| N   30  -0.66694  -0.50000   0.47591   |  -19.08847 -10.00000  17.77511    |
| N   31  -0.54393  -0.50000   0.52897   |  -15.56762 -10.00000  19.75685    |
| N   32  -0.58457  -0.50000   0.47606   |  -16.73087 -10.00000  17.78066    |
| N   33  -0.71058  -0.50000   0.52764   |  -20.33731 -10.00000  19.70737    |
| N   34  -0.71052  -0.50000   0.42322   |  -20.33577 -10.00000  15.80722    |
| N   35  -0.58476  -0.50000   0.58429   |  -16.73633 -10.00000  21.82330    |
| N   36  -0.62690  -0.50000   0.53025   |  -17.94238 -10.00000  19.80502    |
| N   37  -0.62584  -0.50000   0.42102   |  -17.91213 -10.00000  15.72520    |
| N   38  -0.75062  -0.50000   0.58107   |  -21.48328 -10.00000  21.70308    |
| N   39  -0.66595  -0.50000   0.25818   |  -19.05998 -10.00000   9.64312    |
| N   40  -0.54166  -0.50000   0.31320   |  -15.50279 -10.00000  11.69808    |
| N   41  -0.67191  -0.50000   0.36731   |  -19.23059 -10.00000  13.71894    |
| N   42  -0.71498  -0.50000   0.31596   |  -20.46321 -10.00000  11.80107    |
| N   43  -0.58300  -0.50000   0.36640   |  -16.68585 -10.00000  13.68520    |
| N   44  -0.58465  -0.50000   0.25673   |  -16.73321 -10.00000   9.58884    |
| N   45  -0.75521  -0.50000   0.37131   |  -21.61487 -10.00000  13.86829    |
| N   46  -0.74826  -0.50000   0.26058   |  -21.41591 -10.00000   9.73268    |
| N   47  -0.54108  -0.50000   0.74517   |  -15.48626 -10.00000  27.83224    |
| N   48  -0.71052  -0.50000   0.74708   |  -20.33577 -10.00000  27.90362    |
| N   49  -0.62584  -0.50000   0.74489   |  -17.91213 -10.00000  27.82160    |
| N   50  -0.54166  -0.50000   0.63707   |  -15.50279 -10.00000  23.79448    |
| N   51  -0.67191  -0.50000   0.69117   |  -19.23059 -10.00000  25.81534    |
| N   52  -0.71498  -0.50000   0.63983   |  -20.46321 -10.00000  23.89747    |
| N   53  -0.58300  -0.50000   0.69027   |  -16.68585 -10.00000  25.78160    |
| N   54  -0.75521  -0.50000   0.69517   |  -21.61487 -10.00000  25.96469    |
| N   55   0.50000   0.50000   0.58236   |   14.31043  10.00000  21.75109    |
| N   56   0.50000   0.50000   0.36717   |   14.31043  10.00000  13.71394    |
| N   57   0.50000   0.50000   0.25915   |   14.31043  10.00000   9.67918    |
| N   58   0.50000   0.50000   0.69104   |   14.31043  10.00000  25.81034    |
*----------------------------------------------------------------------------*

                               ------------
                               K-POINT GRID
                               ------------

            Grid size =  1 x  1 x  1      Total points =    1


*---------------------------------- MAIN ------------------------------------*
|  Number of Wannier Functions               :               461             |
|  Number of input Bloch states              :               554             |
|  Output verbosity (1=low, 5=high)          :                 1             |
|  Timing Level (1=low, 5=high)              :                 1             |
|  Optimisation (0=memory, 3=speed)          :                 3             |
|  Length Unit                               :               Ang             |
|  Post-processing setup (write *.nnkp)      :                 F             |
|  Using Gamma-only branch of algorithms     :                 T             |
*----------------------------------------------------------------------------*
*------------------------------- WANNIERISE ---------------------------------*
|  Total number of iterations                :               100             |
|  Number of CG steps before reset           :                 5             |
|  Trial step length for line search         :             2.000             |
|  Convergence tolerence                     :         0.100E-06             |
|  Convergence window                        :                20             |
|  Iterations between writing output         :                 1             |
|  Iterations between backing up to disk     :               100             |
|  Write r^2_nm to file                      :                 F             |
|  Write xyz WF centres to file              :                 F             |
|  Write on-site energies <0n|H|0n> to file  :                 F             |
|  Use guiding centre to control phases      :                 F             |
|  Use phases for initial projections        :                 F             |
*----------------------------------------------------------------------------*
*------------------------------- DISENTANGLE --------------------------------*
|  Using band disentanglement                :                 T             |
|  Total number of iterations                :               200             |
|  Mixing ratio                              :             0.500             |
|  Convergence tolerence                     :         1.000E-10             |
|  Convergence window                        :                 3             |
*----------------------------------------------------------------------------*
*------------------------------- TRANSPORT ----------------------------------*
|  Transport mode                            :               lcr             |
|   Hamiltonian from external files          :                 F             |
|   System extended in                       :                 z             |
|   Centre of the unit cell to which WF are translated (fract. coords):      |
|                                       0.500000,    0.500000,    0.500000   |
|  Fermi energy (eV)                         :             0.000             |
*----------------------------------------------------------------------------*
Time to read parameters        0.016 (sec)

*---------------------------------- K-MESH ----------------------------------*
+----------------------------------------------------------------------------+
|                    Distance to Nearest-Neighbour Shells                    |
|                    ------------------------------------                    |
|          Shell             Distance (Ang^-1)          Multiplicity         |
|          -----             -----------------          ------------         |
|             1                   0.168225                      2            |
|             2                   0.219532                      2            |
|             3                   0.276575                      4            |
|             4                   0.314159                      2            |
|             5                   0.336449                      2            |
|             6                   0.356364                      4            |
|             7                   0.383263                      4            |
|             8                   0.401736                      4            |
|             9                   0.418557                      8            |
|            10                   0.439063                      2            |
|            11                   0.460319                      4            |
|            12                   0.470187                      4            |
+----------------------------------------------------------------------------+
| The b-vectors are chosen automatically                                     |
| SVD found small singular value, Rejecting this shell and trying the next   |
| The following shells are used:   1,  2,  4                                 |
+----------------------------------------------------------------------------+
|                        Shell   # Nearest-Neighbours                        |
|                        -----   --------------------                        |
|                          1               2                                 |
|                          2               2                                 |
|                          4               2                                 |
+----------------------------------------------------------------------------+
| Completeness relation is fully satisfied [Eq. (B1), PRB 56, 12847 (1997)]  |
+----------------------------------------------------------------------------+
|                  b_k Vectors (Ang^-1) and Weights (Ang^2)                  |
|                  ----------------------------------------                  |
|            No.         b_k(x)      b_k(y)      b_k(z)        w_b           |
|            ---        --------------------------------     --------        |
|             1         0.000000    0.000000    0.168225    17.668166        |
|             2         0.000000    0.000000   -0.168225    17.668166        |
|             3         0.219532    0.000000    0.000000    10.374709        |
|             4        -0.219532    0.000000    0.000000    10.374709        |
|             5         0.000000    0.314159    0.000000     5.066059        |
|             6         0.000000   -0.314159    0.000000     5.066059        |
+----------------------------------------------------------------------------+
|                           b_k Directions (Ang^-1)                          |
|                           -----------------------                          |
|            No.           x           y           z                         |
|            ---        --------------------------------                     |
|             1         0.000000    0.000000    0.168225                     |
|             2         0.219532    0.000000    0.000000                     |
|             3         0.000000    0.314159    0.000000                     |
+----------------------------------------------------------------------------+

+----------------------------------------------------------------------------+
|        Gamma-point: number of the b-vectors is reduced by half             |
+----------------------------------------------------------------------------+
|                  b_k Vectors (Ang^-1) and Weights (Ang^2)                  |
|                  ----------------------------------------                  |
|            No.         b_k(x)      b_k(y)      b_k(z)        w_b           |
|            ---        --------------------------------     --------        |
|             1         0.000000    0.000000    0.168225    35.336333        |
|             2         0.219532    0.000000    0.000000    20.749417        |
|             3         0.000000    0.314159    0.000000    10.132118        |
+----------------------------------------------------------------------------+

*============================================================================*
|                              MEMORY ESTIMATE                               |
|         Maximum RAM allocated during each phase of the calculation         |
*============================================================================*
|                        Disentanglement           49.15 Mb                  |
|                            Wannierise:           65.82 Mb                  |
|                          plot_wannier:           65.82 Mb                  |
*----------------------------------------------------------------------------*

Reading restart information from file Gr_CNAC_Gr.chk :
written on 16May2017 at 14:50:55 ... done

Restarting Wannier90 from transport routines ...


*---------------------------------------------------------------------------*
|                              TRANSPORT                                    |
*---------------------------------------------------------------------------*


Calculation of Quantum Conductance and DoS: lead-conductor-lead mode

Translated centres
   translation centre in fractional coordinate:  0.500000  0.500000  0.500000
 WF centre     1  ( 13.044159,  9.996161, 25.132759 )
 WF centre     2  (  8.743826, 10.003360, 28.073156 )
 WF centre     3  (  8.333963, 10.270369, 20.169384 )
 WF centre     4  ( 11.999645, 10.276792, 14.194827 )
 WF centre     5  ( 13.160077,  9.999809, 16.027225 )
 WF centre     6  ( 16.701959, 10.353912,  6.387238 )
 WF centre     7  ( 22.230613, 10.000041, 11.315282 )
 WF centre     8  ( 10.689458, 10.000454, 19.811732 )
 WF centre     9  ( 21.161025,  9.685993,  5.212481 )
 WF centre    10  ( 16.183001,  9.728870,  9.194902 )
 WF centre    11  ( 13.011548, 10.289544, 20.331230 )
 WF centre    12  ( 17.492875,  9.828687,  8.740867 )
 WF centre    13  (  8.117872, 10.004954, 36.201551 )
 WF centre    14  (  4.754591, 10.001256, 28.958016 )
 WF centre    15  (  8.300932, 10.000764, 27.908382 )
 WF centre    16  ( 19.232962,  9.723499, 14.419729 )
 WF centre    17  (  5.103745, 10.001768,  9.211211 )
 WF centre    18  ( 10.869972, 10.326274,  0.755226 )
 WF centre    19  ( 20.287482,  9.728888, 20.167557 )
 WF centre    20  (  9.504259, 10.000299, 22.113954 )
 WF centre    21  (  7.438987, 10.310449, 29.784800 )
 WF centre    22  ( 21.315179, 10.257677, 25.759476 )
 WF centre    23  (  7.799388,  9.999863, 27.620101 )
 WF centre    24  ( 19.883124,  9.981667, 28.062382 )
 WF centre    25  ( 15.007745,  9.720130,  2.925082 )
 WF centre    26  ( 16.258741, 10.332552, 36.362779 )
 WF centre    27  (  6.332595, 10.023308,  5.187343 )
 WF centre    28  ( 20.179684,  9.976763, 32.563756 )
 WF centre    29  (  4.351359, 10.010020, 34.994789 )
 WF centre    30  (  9.354838, 10.000310, 26.420040 )
 WF centre    31  ( 13.804678, 10.001821, 25.535104 )
 WF centre    32  ( 15.340488, 10.000562, 19.570543 )
 WF centre    33  ( 18.065806, 10.261619, 31.810611 )
 WF centre    34  (  9.644009, 10.303672, 31.637805 )
 WF centre    35  (  6.932352,  9.954763,  1.908123 )
 WF centre    36  (  7.462039,  9.718704,  5.240420 )
 WF centre    37  ( 18.583207,  9.718130, 17.543841 )
 WF centre    38  ( 19.818814, 10.086245, 31.914946 )
 WF centre    39  (  6.390257,  9.999082, 11.315300 )
 WF centre    40  ( 14.310813,  9.979859, 10.274763 )
 WF centre    41  ( 22.300473,  9.999499, 29.752058 )
 WF centre    42  ( 19.048519, 10.002380,  9.953985 )
 WF centre    43  ( 22.059706,  9.999452, 27.705151 )
 WF centre    44  (  7.065841, 10.000142, 26.557417 )
 WF centre    45  (  7.168390, 10.003296, 15.134534 )
 WF centre    46  ( 13.585614,  9.723938, 11.505376 )
 WF centre    47  ( 17.951722, 10.220556,  8.154149 )
 WF centre    48  ( 11.833401,  9.999345, 18.360541 )
 WF centre    49  ( 17.794916, 10.042761, 29.695817 )
 WF centre    50  (  7.305419, 10.257754, 25.759552 )
 WF centre    51  ( 18.598306,  9.991426, 29.748002 )
 WF centre    52  ( 23.301358, 14.090403, 13.251279 )
 WF centre    53  (  9.695258, 10.339612,  6.663192 )
 WF centre    54  ( 19.403643, 10.255100,  9.367440 )
 WF centre    55  (  6.733629, 10.000406,  9.441715 )
 WF centre    56  ( 12.891872, 10.071612,  4.874154 )
 WF centre    57  ( 20.221874,  9.691810,  7.934049 )
 WF centre    58  (  8.845414, 10.307968,  3.118257 )
 WF centre    59  (  8.948274,  9.686763, 29.804014 )
 WF centre    60  ( 20.312992, 10.242357,  8.181184 )
 WF centre    61  (  7.109180,  9.997447, 23.320186 )
 WF centre    62  ( 12.906028,  9.749214, 33.607411 )
 WF centre    63  ( 21.498026, 10.012565, 22.315250 )
 WF centre    64  ( 16.614480,  9.719230, 26.332122 )
 WF centre    65  (  6.524626,  9.999187, 15.599530 )
 WF centre    66  (  9.320261,  9.637853,  1.384593 )
 WF centre    67  (  9.442492,  9.999795, 27.028866 )
 WF centre    68  (  7.112458,  9.999363, 27.304793 )
 WF centre    69  ( 10.915899,  9.813925,  7.456000 )
 WF centre    70  ( 15.571668, 10.273412,  7.492746 )
 WF centre    71  ( 21.199361, 10.310127, 34.120686 )
 WF centre    72  (  5.059234,  9.985760, 13.362206 )
 WF centre    73  ( 21.555066,  9.999819, 26.557382 )
 WF centre    74  (  7.089252,  9.909552, 31.412708 )
 WF centre    75  (  7.504941, 10.057396, 31.901142 )
 WF centre    76  ( 22.250325, 10.002573,  7.266382 )
 WF centre    77  (  5.443440,  5.834058, 13.104946 )
 WF centre    78  ( 21.452249, 10.004237, 15.135210 )
 WF centre    79  (  7.520694,  9.740196,  9.542435 )
 WF centre    80  ( 12.805171,  9.737039, 27.613958 )
 WF centre    81  ( 19.788376, 10.001011, 19.464936 )
 WF centre    82  ( 12.458532, 10.237288,  9.213753 )
 WF centre    83  (  9.623628,  9.999886, 13.551048 )
 WF centre    84  (  8.291901,  9.730959, 11.785369 )
 WF centre    85  (  8.249194,  9.999226, 16.106907 )
 WF centre    86  ( 15.029155, 10.038049, 32.041809 )
 WF centre    87  ( 19.103682,  9.992875, 18.973044 )
 WF centre    88  (  8.886725, 10.284215, 29.790340 )
 WF centre    89  ( 10.896303,  9.646558,  0.215786 )
 WF centre    90  ( 16.832509, 10.004242, 18.087038 )
 WF centre    91  ( 19.271963, 10.001092, 30.790996 )
 WF centre    92  ( 11.433320, 10.001684, 21.517534 )
 WF centre    93  ( 14.773603, 10.338078,  2.938920 )
 WF centre    94  ( 15.895213,  9.721230, 15.428829 )
 WF centre    95  ( 21.148697, 10.307379,  5.194202 )
 WF centre    96  ( 11.998954,  9.723369, 14.194509 )
 WF centre    97  ( 22.095624,  9.989000, 13.633455 )
 WF centre    98  ( 13.028178,  9.712128, 20.306072 )
 WF centre    99  ( 19.828688, 10.281845, 13.481009 )
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 WF centre   401  ( 10.806624, 10.057691, 27.783909 )
 WF centre   402  ( 12.857001, 10.001108, 23.692004 )
 WF centre   403  ( 16.769099, 10.003485, 22.132119 )
 WF centre   404  ( 13.542262, 10.270180, 29.660202 )
 WF centre   405  ( 19.550475, 10.275789, 21.470788 )
 WF centre   406  ( 22.336144,  9.994219, 31.817011 )
 WF centre   407  ( 18.452771, 10.004504, 19.505962 )
 WF centre   408  ( 14.122340,  9.859006, 13.609119 )
 WF centre   409  ( 13.177784, 10.001629, 24.385722 )
 WF centre   410  ( 17.432543, 10.006226, 19.506077 )
 WF centre   411  ( 13.579781,  9.721053, 23.602220 )
 WF centre   412  ( 18.909581, 10.083586,  5.979621 )
 WF centre   413  ( 21.205070, 10.289203, 36.015161 )
 WF centre   414  ( 19.659186,  9.720905, 25.627788 )
 WF centre   415  ( 13.585784, 10.274202, 23.601949 )
 WF centre   416  ( 16.325996, 10.268789, 21.509990 )
 WF centre   417  (  5.181274,  9.998157, 20.260552 )
 WF centre   418  ( 12.087714,  9.683049, 35.308012 )
 WF centre   419  ( 17.978856,  9.711231,  7.384080 )
 WF centre   420  ( 18.446857, 10.001254, 15.433119 )
 WF centre   421  ( 17.398649,  9.996666, 36.054478 )
 WF centre   422  ( 19.830502, 10.000824, 27.612876 )
 WF centre   423  ( 11.005335, 10.095316, 32.251199 )
 WF centre   424  ( 20.821355,  9.999836, 27.619900 )
 WF centre   425  (  7.602527, 10.004981,  7.260773 )
 WF centre   426  ( 14.487645, 10.189152, 21.647619 )
 WF centre   427  ( 15.508359, 10.053292, 13.032837 )
 WF centre   428  ( 12.482774,  9.996394, 13.439010 )
 WF centre   429  ( 15.121839,  9.709602, 29.660078 )
 WF centre   430  ( 20.329543, 10.268820, 11.783182 )
 WF centre   431  ( 14.854827,  9.621634,  1.070843 )
 WF centre   432  ( 10.040838, 10.001256,  9.290438 )
 WF centre   433  ( 16.959656, 10.021678, 17.733728 )
 WF centre   434  (  9.022492,  9.667689, 34.262932 )
 WF centre   435  (  9.196825, 10.257575,  9.371119 )
 WF centre   436  (  9.573608, 10.003543,  9.952721 )
 WF centre   437  ( 10.680992, 10.000704, 20.372721 )
 WF centre   438  ( 21.493864, 10.070571, 31.471388 )
 WF centre   439  ( 23.867234,  9.997387, 28.957062 )
 WF centre   440  (  7.304297,  9.742036, 25.760107 )
 WF centre   441  (  6.678156, 10.017018, 21.381679 )
 WF centre   442  ( 10.712209,  9.999794, 16.326707 )
 WF centre   443  (  6.941814, 10.041281, 30.771627 )
 WF centre   444  ( 18.827864, 10.315879, 35.555940 )
 WF centre   445  ( 13.802594, 10.021507, 21.476858 )
 WF centre   446  (  8.006641, 10.000249, 19.524715 )
 WF centre   447  ( 11.319496, 10.251301,  9.183495 )
 WF centre   448  ( 17.951570,  9.995433, 21.147184 )
 WF centre   449  ( 23.520358, 10.002864,  9.213920 )
 WF centre   450  ( 18.442725, 10.012316, 27.528382 )
 WF centre   451  (  7.441698,  9.679489, 29.795083 )
 WF centre   452  ( 14.006398,  9.751313, 31.899078 )
 WF centre   453  ( 14.972579, 10.001251, 27.564412 )
 WF centre   454  ( 11.858633,  9.999538, 22.116352 )
 WF centre   455  (  8.147904,  9.721543, 24.374529 )
 WF centre   456  (  7.505531,  9.882456,  2.993974 )
 WF centre   457  ( 21.700485,  9.970511,  1.905193 )
 WF centre   458  ( 19.827899,  9.720570, 13.480147 )
 WF centre   459  ( 21.316993,  9.742060, 25.760318 )
 WF centre   460  ( 19.176945,  9.997749, 27.030981 )
 WF centre   461  ( 21.353297, 10.256504, 13.705475 )
------------------------------------------------------------------------------

Maximum imaginary part of the real-space Hamiltonian:     0.000000

------------------------------------------------------------------------------
    Maximum real part of the real-space Hamiltonian at each lattice point
        --------------------------------------------------------------
           Lattice point R           Max |H_ij(R)|
                 -1                     4.079355
                  0                    19.487953
                  1                     4.079355
        --------------------------------------------------------------

Number of unit cells inside the principal layer:     1
Number of Wannier Functions inside the principal layer:    43
------------------------- 2c2 Calculation Type: ------------------------------

Reading Gr_CNAC_Gr.unkg  file

Sorting WFs into principal layers

Inconsistent number of groups among principal layers: restarting sorting...

Sorting WFs into principal layers

Exiting.......
Sorting techniques exhausted: Inconsistent number of groups among principal layers

---
Haichang Lu
Department of Engineering , University of Cambridge

Centre for Advanced Photonics and Electronics,9 JJ Thomson Ave, Cambridge
CB3 0FA, United Kingdom

St. Edmund's college
Tel: +44(0) 7778 392573

On 2017-05-16 14:47, Haichang Lu wrote:
Dear All,
Below is the input file:
num_bands       = 554
num_wann        =  461
conv_tol        = 1.0d-7
conv_window     = 20
translate_home_cell = .true.
!dis_win_max     = 7.5
!dis_froz_max    = -2.30
!dis_conv_tol    = 1.0d-9
!dis_conv_window = 20
!guiding_centres = .true.
!num_print_cycles = 10
# Transport
transport = .true.
transport_mode = lcr
tran_read_ht = .false.
one_dim_axis = z
fermi_energy = 0
tran_win_min = -15
tran_win_max = 15
tran_energy_step = 0.01
translation_centre_frac = 0.5 0.5 0.5
tran_num_cell_ll = 1
tran_num_rr = 54
tran_num_ll = 54
dist_cutoff = 4.26
dist_cutoff_mode = one_dim
! SYSTEM
begin unit_cell_cart
Ang
     28.620869129221902       0.000000000000000       0.000000000000000
      0.000000000000000      19.999999943129701       0.000000000000000
      0.000000000000000       0.000000000000000      37.350000000000001
end unit_cell_cart
! KPOINTS
mp_grid : 1 1 1
gamma_only = .true.
begin kpoints
0.0000  0.0000  0.0000
end kpoints
begin atoms_frac
 H   0.7916897963503170   0.5000000000000000   0.0833335855333369
 H   0.7913155200514430   0.5000000000000000   0.0183656282099692
 H   0.7791431992206470   0.5000000000000000   0.5645279115988290
 H   0.7897125368888751   0.5000000000000000   0.3058757052405540
 H   0.7829463627080721   0.5000000000000000   0.4234103020578370
 H   0.7782859350387951   0.5000000000000000   0.2458710458605870
 H   0.2130143618650380   0.5000000000000000   0.3588307318330350
 H   0.2106135864276420   0.5000000000000000   0.1988481685591510
 H   0.7909185619247100   0.5000000000000000   0.1347422094847110
 H   0.7916897963503170   0.5000000000000000   0.8566347766602950
 H   0.7913155200514430   0.5000000000000000   0.7916668193369280
 H   0.7897125368888751   0.5000000000000000   0.6297418295858240
 H   0.7829463627080721   0.5000000000000000   0.7472764264031101
 H   0.2130143618650380   0.5000000000000000   0.6826968561783050
 H   0.2106135864276420   0.5000000000000000   0.9721493596861091
 H   0.7909185619247100   0.5000000000000000   0.9080434006116691
 H  -0.7916897963503171  -0.4999999999999999   0.0833335855333369
 H  -0.7913155200514431  -0.4999999999999999   0.0183656282099692
 H  -0.7791431992206470  -0.4999999999999999   0.5645279115988290
 H  -0.7897125368888751  -0.4999999999999999   0.3058757052405540
 H  -0.7829463627080721  -0.4999999999999999   0.4234103020578370
 H  -0.7782859350387951  -0.4999999999999999   0.2458710458605870
 H  -0.2130143618650380  -0.4999999999999999   0.3588307318330350
 H  -0.2106135864276420  -0.4999999999999999   0.1988481685591510
 H  -0.7909185619247100  -0.4999999999999999   0.1347422094847110
 H  -0.7916897963503171  -0.4999999999999999   0.8566347766602950
 H  -0.7913155200514431  -0.4999999999999999   0.7916668193369280
 H  -0.7897125368888751  -0.4999999999999999   0.6297418295858240
 H  -0.7829463627080721  -0.4999999999999999   0.7472764264031101
 H  -0.2130143618650380  -0.4999999999999999   0.6826968561783050
 H  -0.2106135864276420  -0.4999999999999999   0.9721493596861091
 H  -0.7909185619247100  -0.4999999999999999   0.9080434006116691
 C   0.6729156662837390   0.5000000000000000   0.0322057694193174
 C   0.5860633006754320   0.5000000000000000   0.0322593010744883
 C   0.5862035487667270   0.5000000000000000   0.0701230208318563
 C   0.6730111800649791   0.5000000000000000   0.0701825151526256
 C   0.7582779001913660   0.5000000000000000   0.0694128748721615
 C   0.5429794153497181   0.5000000000000000   0.0136398495035532
 C   0.7159222600512420   0.5000000000000000   0.0132857947974614
 C   0.7580701906683771   0.5000000000000000   0.0325885057248087
 C   0.5430518040335920   0.5000000000000000   0.0886410538667277
 C   0.7161764564165680   0.5000000000000000   0.0890235964381273
 C   0.6293512161501750   0.5000000000000000   0.0887866116352957
 C   0.3707495517778540   0.5000000000000000   0.0138691859915831
 C   0.7100575780461551   0.5000000000000000   0.5630999409967971
 C   0.6254498231276130   0.5000000000000000   0.4590978850259961
 C   0.5427776729176240   0.5000000000000000   0.5640117632252351
 C   0.6268260676191521   0.5000000000000000   0.5664751285823861
 C   0.6693077194087240   0.5000000000000000   0.5104709563837421
 C   0.5838734492966430   0.5000000000000000   0.5109947742621080
 C   0.6720848562201960   0.5000000000000000   0.1453443671660630
 C   0.5423701133239530   0.5000000000000000   0.2016472474734690
 C   0.5857078049960651   0.5000000000000000   0.1449010260227780
 C   0.7125855186181920   0.5000000000000000   0.2031336373040880
 C   0.5806003373203190   0.5000000000000000   0.4019578680972360
 C   0.7066491885845430   0.5000000000000000   0.2411935801252300
 C   0.6289853281709690   0.5000000000000000   0.1264239152504680
 C   0.7528271895459711   0.5000000000000000   0.2967909283232960
 C   0.6701775459043550   0.5000000000000000   0.4028111709414560
 C   0.5442679390736830   0.5000000000000000   0.2396395787413580
 C   0.7506639014781411   0.5000000000000000   0.4075700864928201
 C   0.6259223798636610   0.5000000000000000   0.2387446780164340
 C   0.5424157505876360   0.5000000000000000   0.3484920133994860
 C   0.6709015158357080   0.5000000000000000   0.1830745114179230
 C   0.7132981115705910   0.5000000000000000   0.3512122806967161
 C   0.5850234718680230   0.5000000000000000   0.1826539444360870
 C   0.6274622193340150   0.5000000000000000   0.2011588867630210
 C   0.4570559687221881   0.5000000000000000   0.1263171724481740
 C   0.7156492555177431   0.5000000000000000   0.1273846272935230
 C   0.7570605345701631   0.5000000000000000   0.1480484956630520
 C   0.7558469487007951   0.5000000000000000   0.1848443171960220
 C   0.6729156662837390   0.5000000000000000   0.8055069605462740
 C   0.5860633006754320   0.5000000000000000   0.8055604922014470
 C   0.5862035487667270   0.5000000000000000   0.8434242119588160
 C   0.6730111800649791   0.5000000000000000   0.8434837062795830
 C   0.7582779001913660   0.5000000000000000   0.8427140659991210
 C   0.5429794153497181   0.5000000000000000   0.7869410406305110
 C   0.7159222600512420   0.5000000000000000   0.7865869859244210
 C   0.7580701906683771   0.5000000000000000   0.8058896968517670
 C   0.5430518040335920   0.5000000000000000   0.8619422449936880
 C   0.7161764564165680   0.5000000000000000   0.8623247875650870
 C   0.5806003373203190   0.5000000000000000   0.7258239924425070
 C   0.7528271895459711   0.5000000000000000   0.6206570526685660
 C   0.6701775459043550   0.5000000000000000   0.7266772952867270
 C   0.7506639014781411   0.5000000000000000   0.7314362108380911
 C   0.5424157505876360   0.5000000000000000   0.6723581377447570
 C   0.7132981115705910   0.5000000000000000   0.6750784050419850
 C   0.6293512161501750   0.5000000000000000   0.8620878027622541
 C   0.3707495517778540   0.5000000000000000   0.7871703771185400
 C   0.6720848562201960   0.5000000000000000   0.9186455582930210
 C   0.5441170903208520   0.5000000000000000   0.9749484386004280
 C   0.5857078049960651   0.5000000000000000   0.9182022171497360
 C   0.7160794726119890   0.5000000000000000   0.9764348284310469
 C   0.6289853281709690   0.5000000000000000   0.8997251063774260
 C   0.6709015158357080   0.5000000000000000   0.9563757025448830
 C   0.5850234718680230   0.5000000000000000   0.9559551355630441
 C   0.6309561733278130   0.5000000000000000   0.9744600778899790
 C   0.4570559687221881   0.5000000000000000   0.8996183635751330
 C   0.7156492555177431   0.5000000000000000   0.9006858184204830
 C   0.7570605345701631   0.5000000000000000   0.9213496867900080
 C   0.7575939256976930   0.5000000000000000   0.9581455083229811
 C  -0.6729156662837391  -0.4999999999999999   0.0322057694193174
 C  -0.5860633006754320  -0.4999999999999999   0.0322593010744883
 C  -0.5862035487667271  -0.4999999999999999   0.0701230208318563
 C  -0.6730111800649791  -0.4999999999999999   0.0701825151526256
 C  -0.7582779001913661  -0.4999999999999999   0.0694128748721615
 C  -0.5429794153497182  -0.4999999999999999   0.0136398495035532
 C  -0.7159222600512422  -0.4999999999999999   0.0132857947974614
 C  -0.7580701906683771  -0.4999999999999999   0.0325885057248087
 C  -0.5430518040335920  -0.4999999999999999   0.0886410538667277
 C  -0.7161764564165681  -0.4999999999999999   0.0890235964381273
 C  -0.6293512161501750  -0.4999999999999999   0.0887866116352957
 C  -0.3707495517778540  -0.4999999999999999   0.0138691859915831
 C  -0.7100575780461551  -0.4999999999999999   0.5630999409967971
 C  -0.6254498231276131  -0.4999999999999999   0.4590978850259961
 C  -0.5427776729176241  -0.4999999999999999   0.5640117632252351
 C  -0.6268260676191522  -0.4999999999999999   0.5664751285823861
 C  -0.6693077194087241  -0.4999999999999999   0.5104709563837421
 C  -0.5838734492966431  -0.4999999999999999   0.5109947742621080
 C  -0.6720848562201961  -0.4999999999999999   0.1453443671660630
 C  -0.5423701133239531  -0.4999999999999999   0.2016472474734690
 C  -0.5857078049960651  -0.4999999999999999   0.1449010260227780
 C  -0.7125855186181921  -0.4999999999999999   0.2031336373040880
 C  -0.5806003373203191  -0.4999999999999999   0.4019578680972360
 C  -0.7066491885845431  -0.4999999999999999   0.2411935801252300
 C  -0.6289853281709690  -0.4999999999999999   0.1264239152504680
 C  -0.7528271895459712  -0.4999999999999999   0.2967909283232960
 C  -0.6701775459043551  -0.4999999999999999   0.4028111709414560
 C  -0.5442679390736831  -0.4999999999999999   0.2396395787413580
 C  -0.7506639014781411  -0.4999999999999999   0.4075700864928201
 C  -0.6259223798636611  -0.4999999999999999   0.2387446780164340
 C  -0.5424157505876361  -0.4999999999999999   0.3484920133994860
 C  -0.6709015158357080  -0.4999999999999999   0.1830745114179230
 C  -0.7132981115705911  -0.4999999999999999   0.3512122806967161
 C  -0.5850234718680231  -0.4999999999999999   0.1826539444360870
 C  -0.6274622193340151  -0.4999999999999999   0.2011588867630210
 C  -0.4570559687221880  -0.4999999999999999   0.1263171724481740
 C  -0.7156492555177432  -0.4999999999999999   0.1273846272935230
 C  -0.7570605345701631  -0.4999999999999999   0.1480484956630520
 C  -0.7558469487007951  -0.4999999999999999   0.1848443171960220
 C  -0.6729156662837391  -0.4999999999999999   0.8055069605462740
 C  -0.5860633006754320  -0.4999999999999999   0.8055604922014470
 C  -0.5862035487667271  -0.4999999999999999   0.8434242119588160
 C  -0.6730111800649791  -0.4999999999999999   0.8434837062795830
 C  -0.7582779001913661  -0.4999999999999999   0.8427140659991210
 C  -0.5429794153497182  -0.4999999999999999   0.7869410406305110
 C  -0.7159222600512422  -0.4999999999999999   0.7865869859244210
 C  -0.7580701906683771  -0.4999999999999999   0.8058896968517670
 C  -0.5430518040335920  -0.4999999999999999   0.8619422449936880
 C  -0.7161764564165681  -0.4999999999999999   0.8623247875650870
 C  -0.5806003373203191  -0.4999999999999999   0.7258239924425070
 C  -0.7528271895459712  -0.4999999999999999   0.6206570526685660
 C  -0.6701775459043551  -0.4999999999999999   0.7266772952867270
 C  -0.7506639014781411  -0.4999999999999999   0.7314362108380911
 C  -0.5424157505876361  -0.4999999999999999   0.6723581377447570
 C  -0.7132981115705911  -0.4999999999999999   0.6750784050419850
 C  -0.6293512161501750  -0.4999999999999999   0.8620878027622541
 C  -0.3707495517778540  -0.4999999999999999   0.7871703771185400
 C  -0.6720848562201961  -0.4999999999999999   0.9186455582930210
 C  -0.5441170903208521  -0.4999999999999999   0.9749484386004280
 C  -0.5857078049960651  -0.4999999999999999   0.9182022171497360
 C  -0.7160794726119891  -0.4999999999999999   0.9764348284310469
 C  -0.6289853281709690  -0.4999999999999999   0.8997251063774260
 C  -0.6709015158357080  -0.4999999999999999   0.9563757025448830
 C  -0.5850234718680231  -0.4999999999999999   0.9559551355630441
 C  -0.6309561733278130  -0.4999999999999999   0.9744600778899790
 C  -0.4570559687221880  -0.4999999999999999   0.8996183635751330
 C  -0.7156492555177432  -0.4999999999999999   0.9006858184204830
 C  -0.7570605345701631  -0.4999999999999999   0.9213496867900080
 C  -0.7575939256976931  -0.4999999999999999   0.9581455083229811
 C   0.5000000000000000   0.5000000000000000   0.0699927967458334
 C   0.5000000000000000   0.5000000000000000   0.0322510549594650
 C   0.5000000000000000   0.5000000000000000   0.2969510463517080
 C   0.5000000000000000   0.5000000000000000   0.4043188842729510
 C   0.5000000000000000   0.5000000000000000   0.1451349618570710
 C   0.5000000000000000   0.5000000000000000   0.1827134961476530
 C   0.5000000000000000   0.5000000000000000   0.8432939878727941
 C   0.5000000000000000   0.5000000000000000   0.8055522460864220
 C   0.5000000000000000   0.5000000000000000   0.6208171706969800
 C   0.5000000000000000   0.5000000000000000   0.7281850086182210
 C   0.5000000000000000   0.5000000000000000   0.9184361529840311
 C   0.5000000000000000   0.5000000000000000   0.9560146872746120
 N   0.5410829445468121   0.5000000000000000   0.4213075446676921
 N   0.6685000360612060   0.5000000000000000   0.5837210067491560
 N   0.6669424290904130   0.5000000000000000   0.4759064451312000
 N   0.5439253285960340   0.5000000000000000   0.5289652747441830
 N   0.5845689064938940   0.5000000000000000   0.4760551744834840
 N   0.7105763742774670   0.5000000000000000   0.5276403204014351
 N   0.7105222874689660   0.5000000000000000   0.4232186752789690
 N   0.5847595817591159   0.5000000000000000   0.5842917220858700
 N   0.6268984443976630   0.5000000000000000   0.5302549077099270
 N   0.6258415990618180   0.5000000000000000   0.4210226491485590
 N   0.7506160617192740   0.5000000000000000   0.5810730858375940
 N   0.6659470073675330   0.5000000000000000   0.2581825661711530
 N   0.5416603132741310   0.5000000000000000   0.3132016776997550
 N   0.6719078862969961   0.5000000000000000   0.3673077606479680
 N   0.7149751632917250   0.5000000000000000   0.3159591370745861
 N   0.5829958215370810   0.5000000000000000   0.3664042214230470
 N   0.5846506244251990   0.5000000000000000   0.2567294130469170
 N   0.7552137767770520   0.5000000000000000   0.3713063948367240
 N   0.7482619786482662   0.5000000000000000   0.2605804847512340
 N   0.5410829445468121   0.5000000000000000   0.7451736690129650
 N   0.7105222874689660   0.5000000000000000   0.7470847996242400
 N   0.6258415990618180   0.5000000000000000   0.7448887734938301
 N   0.5416603132741310   0.5000000000000000   0.6370678020450260
 N   0.6719078862969961   0.5000000000000000   0.6911738849932390
 N   0.7149751632917250   0.5000000000000000   0.6398252614198570
 N   0.5829958215370810   0.5000000000000000   0.6902703457683180
 N   0.7552137767770520   0.5000000000000000   0.6951725191819970
 N  -0.5410829445468122  -0.4999999999999999   0.4213075446676921
 N  -0.6685000360612061  -0.4999999999999999   0.5837210067491560
 N  -0.6669424290904131  -0.4999999999999999   0.4759064451312000
 N  -0.5439253285960342  -0.4999999999999999   0.5289652747441830
 N  -0.5845689064938942  -0.4999999999999999   0.4760551744834840
 N  -0.7105763742774671  -0.4999999999999999   0.5276403204014351
 N  -0.7105222874689661  -0.4999999999999999   0.4232186752789690
 N  -0.5847595817591160  -0.4999999999999999   0.5842917220858700
 N  -0.6268984443976631  -0.4999999999999999   0.5302549077099270
 N  -0.6258415990618181  -0.4999999999999999   0.4210226491485590
 N  -0.7506160617192741  -0.4999999999999999   0.5810730858375940
 N  -0.6659470073675331  -0.4999999999999999   0.2581825661711530
 N  -0.5416603132741310  -0.4999999999999999   0.3132016776997550
 N  -0.6719078862969961  -0.4999999999999999   0.3673077606479680
 N  -0.7149751632917251  -0.4999999999999999   0.3159591370745861
 N  -0.5829958215370811  -0.4999999999999999   0.3664042214230470
 N  -0.5846506244251991  -0.4999999999999999   0.2567294130469170
 N  -0.7552137767770522  -0.4999999999999999   0.3713063948367240
 N  -0.7482619786482662  -0.4999999999999999   0.2605804847512340
 N  -0.5410829445468122  -0.4999999999999999   0.7451736690129650
 N  -0.7105222874689661  -0.4999999999999999   0.7470847996242400
 N  -0.6258415990618181  -0.4999999999999999   0.7448887734938301
 N  -0.5416603132741310  -0.4999999999999999   0.6370678020450260
 N  -0.6719078862969961  -0.4999999999999999   0.6911738849932390
 N  -0.7149751632917251  -0.4999999999999999   0.6398252614198570
 N  -0.5829958215370811  -0.4999999999999999   0.6902703457683180
 N  -0.7552137767770522  -0.4999999999999999   0.6951725191819970
 N   0.5000000000000000   0.5000000000000000   0.5823584575610350
 N   0.5000000000000000   0.5000000000000000   0.3671738149164150
 N   0.5000000000000000   0.5000000000000000   0.2591481079130980
 N   0.5000000000000000   0.5000000000000000   0.6910399392616872
end atoms_frac
begin projections
random
end projections
---
Haichang Lu
Department of Engineering , University of Cambridge
Centre for Advanced Photonics and Electronics,9 JJ Thomson Ave, Cambridge
CB3 0FA, United Kingdom
St. Edmund's college
Tel: +44(0) 7778 392573
On 2017-05-16 10:11, Haichang Lu wrote:
Dear All,
I am conducting lcr transport calculation while I found a message in
the end of my unfinished calculation.
Reading CNNRAC_LCR.unkg  file
Sorting WFs into principal layers
Inconsistent number of groups among principal layers: restarting sorting...
Sorting WFs into principal layers
Exiting.......
Sorting techniques exhausted: Inconsistent number of groups among
principal layers
I set number of unit cell in side the principle layers into 1 and
number of wannier functions inside the principle layer into 54, which
is the number of wannier function of a unit cell of lead.
I only put one unit cell in the left and right lead.
However, when I calculate your tutorial of example 15 of defect CNT, I
found lcr need 4 Principle layers, with 2 at each end.
I wonder if only 1 unit cell at each lead is enough? Or more for buffer region.
And can anyone explain what is sorted index and unsorted index in
principle layer sorting procedure?
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