[SIESTA-L] plotting difficulty

2009-04-04 Thread catrina desport
Dear all, I know this is not directly related to siesta, but I really need you to share your experience with me. I have managed to plot my graphs with xmgrace. But I am not quite familiar with the setting of my data on the graphs. Do you have any idea of how to : 1. set the fermi level to zer

[SIESTA-L] plotting band-structure

2009-02-21 Thread catrina desport
Hi everyone, I am sorry that this question may be so wierd. I have tried to plot the band structure by gnuplot but whatever I did the high symmetry points are not being mentioned correctly. I have tried so much, but I could not manage to do it. Is it possible that I have the script you use for

[SIESTA-L] Polarization grid

2009-02-05 Thread catrina desport
Dear all, In my calculations on the nanowires, I have used the polarization grid to calculate the LO-TO splittings in the wires. But, it seems that I have problem arranging the digits in the polarization grid. The grid I have used is as follows: %block PolarizationGrids 8 1 1 no 8 8 1 no 1 1

[SIESTA-L] electric field theory

2009-01-11 Thread catrina desport
Hi, I want to know that by applying the electric field in siesta, we are calculating the response of the system to electric field perturbation through DFPT? Please let me know what theory does siesta follw in appying the external electric field. regards, Catrina

Re: [SIESTA-L] passivation unconverged

2009-01-01 Thread catrina desport
I decreased the mixingweight to 0.02 and I got converged. But could you kindly let me know how you optimize the "c" parameter of the wires? I have my own method, but seems to me unreliable, although for unstaurated one I have got good results. Regards, Catrina __

[SIESTA-L] passivation unconverged

2009-01-01 Thread catrina desport
Hello all, I have ran siesta for different diameters of bare nanowires of zinc oxide, well converged and good results achieved. But Now I have passivated the wires and I have put the bond length of H-Zinc and H-Oxygen as 1.55 and 0.98 Angstrom respectively. But I could not converge the scf cy

[SIESTA-L] problem with pdosxml

2008-12-28 Thread catrina desport
Dear all, Happy 2009. I have calculated the PDOS in the files I have converged and now I want to plot DOS for different orbitals. I saw the files: m_orbital_chooser.f90, m_pdos.f90 and pdos.f90 in the UTIL, also in the mailing list I saw a fortran file for plotting the DOS ?!?! Please let me

[SIESTA-L] H-passivation

2008-12-23 Thread catrina desport
Hi, Does anybody have the experience of saturating the dangling bonds with hydrogen? how can we have the coordinates of "H" atoms? Regards, Catrina

Re: [SIESTA-L] [SUSPECTED-SPAM] Re: [SIESTA-L] ./optical

2008-12-07 Thread catrina desport
Hello, can you run the regular "siesta" (compiled with gfortran) ? yes I can. I also do not receive segfaults while I compile other .f files in utility, this has occured only for "optical" what should I change in it to get the run? Regards, Catrina From: S

Re: [SIESTA-L] ./optical

2008-12-07 Thread catrina desport
To respected siesta users, when I run input using ./input < SysLabel.EPSIMG and then I write ./optical without the arrow, still the segmentation fault occurs ?!?! What is the reason? Regards, Catrina From: Marty Blaber <[EMAIL PROTECTED]> To: SIESTA-L@listser

[SIESTA-L] ./optical

2008-12-06 Thread catrina desport
To all respected siesta users, I have compiled siesta with gfortran. After compiling optical from "utility" when I write ./optical

Re: [SIESTA-L] URGENT (supercell for bulk)

2008-11-25 Thread catrina desport
molecules, surfaces etc) by constructing a large supercell with a vacuum layer. if you calculate just an ideal bulk crystal, making supercell does not change anything at all because of periodic boundary conditions! so you just waste the computation time if you do it. regards, Yurko 2008/11/

Re: [SIESTA-L] URGENT (supercell for bulk)

2008-11-25 Thread catrina desport
Dear Andrei Postnikov, I am sorry if my words were confusing. Actually, it is not the matter of imitating at all. I just wanted to know if having supercell for some systems like bulk hexagonal helps to get better answers. I didn't enclose their article to keep it from judgements, but in a present

[SIESTA-L] URGENT (supercell for bulk)

2008-11-25 Thread catrina desport
To all respected siesta users: Considering an article on a hexagonal lattice, written by authors who have worked with siesta, I have encountered that they have used 6x6x2 supercell for their "bulk" system !!! I need to know how they have done it to generate the appropriate supercell for better op