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Re: [abinit-forum] Symmetry detected correctly in primitive cell, then not in doubled supercell?


Chronological Thread 
  • From: "Aldo Humberto Romero" <aromero@qro.cinvestav.mx>
  • To: forum@abinit.org
  • Subject: Re: [abinit-forum] Symmetry detected correctly in primitive cell, then not in doubled supercell?
  • Date: Mon, 26 Oct 2009 19:19:52 -0600 (CST)
  • Importance: Normal

Well... with respect to YVO4, according to the ICSD database, it is
a crystal with space group 141.. using the ICSD cif file as input in Abinit,
you get exactly spg 141.. try the following
..

acell 1.0000000000E+00 1.0000000000E+00 1.0000000000E+00

rprim -3.5550000000E+00 3.5550000000E+00 3.1400000000E+00
3.5550000000E+00 -3.5550000000E+00 3.1400000000E+00
3.5550000000E+00 3.5550000000E+00 -3.1400000000E+00

typat 1 2 3 3 1 2 3 3 3 3 3 3

xred 8.7500000000E-01 1.2500000000E-01 7.5000000000E-01
6.2500000000E-01 3.7500000000E-01 2.5000000000E-01
6.3500000000E-01 2.0080000000E-01 4.3420000000E-01
2.6660000000E-01 2.0080000000E-01 6.5800000000E-02
1.2500000000E-01 8.7500000000E-01 2.5000000000E-01
3.7500000000E-01 6.2500000000E-01 7.5000000000E-01
2.0080000000E-01 2.6660000000E-01 5.6580000000E-01
2.0080000000E-01 6.3500000000E-01 9.3420000000E-01
7.3340000000E-01 7.9920000000E-01 9.3420000000E-01
3.6500000000E-01 7.9920000000E-01 5.6580000000E-01
7.9920000000E-01 3.6500000000E-01 6.5800000000E-02
7.9920000000E-01 7.3340000000E-01 4.3420000000E-01


Good luck

regards

-aldo.


PS Abinit follows definitions from the crystallographic tables...
therefore, if you
find the wrong symmetry, please check your definition against the tables.
If you
build a supercell, obviously you do not have the symmetries coming from
the real unit cell.


-> Dear Quan Phung Manh and Bryce
-> Same problem, i am facing. My structure is YVO4 , which is I4/mmm but
-> according the output file, it is space group P2 (# 3); Bravais mP
-> (primitive monocl.) even i have not specified that chkprim is 0. please
-> guide ,How can i solve this problem ??
-> My input file is pasted below
-> Thanks
-> Dev
->
-> # Data common to the three different datasets
->
-> acell 13.451637476 13.451637476 11.885054518
-> angdeg 90 90 90
->
-> #Definition of the atom types
-> ntypat 3 # There r 3 type of atom
-> znucl 39 23 8 # The keyword "znucl" refers to the atomic number
-> of
-> the
-> # possible type(s) of atom. (39- Y, 23 -V and 8-O)
->
->
-> #Definition of the atoms
-> natom 24
-> typat 1 1 1 1 2 2 2 2 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3
-> xangst
-> 0.000000000 5.338725356 0.786162553
-> 3.559150238 1.779575118 3.930812762
-> 3.559150238 5.338725356 2.358487657
-> 0.000000000 1.779575118 5.503137866
-> 0.000000000 1.779575118 2.358487657
-> 3.559150238 5.338725356 5.503137866
-> 0.000000000 5.338725356 3.930812762
-> 3.559150238 1.779575118 0.786162553
-> 0.000000000 3.090765987 1.262891534
-> 3.559150238 6.649916224 4.407541744
-> 3.559150238 4.027534488 4.407541744
-> 0.000000000 0.468384251 1.262891534
-> 5.807109607 5.338725356 2.835216639
-> 4.870341106 1.779575118 5.979866849
-> 3.559150238 3.090765987 1.881758675
-> 0.000000000 6.649916224 5.026408885
-> 0.000000000 4.027534488 5.026408885
-> 3.559150238 0.468384251 1.881758675
-> 4.870341106 5.338725356 0.30943357
-> 5.807109607 1.779575118 3.45408378
-> 1.311190868 1.779575118 3.45408378
-> 2.247959369 5.338725356 0.30943357
-> 2.247959369 1.779575118 5.979866849
-> 1.311190868 5.338725356 2.835216639
->
->
-> On Sat, Oct 24, 2009 at 8:31 PM, Quan Phung Manh
-> <manhquank9@gmail.com>wrote:
->
->> Dear Bryce
->>
->> I don't know how your full input is. But I think your problem comes from
->> the keyword: chkprim 0. You doubled the cell, then Abinit symmetry
->> finder
->> found that the unit cell is not primitive. The multiplicity is 2. The
->> use
->> of non-primitive unit cells is allowed only when the input variable
->> chkprim
->> is 0. I guess you used this keyword to pass the error. That why you had
->> P1.
->>
->> Regards.
->>
->> 2009/10/22 <bmeredig@gmail.com>
->>
->> Dear Abinit users,
->>>
->>> I'm having symmetry issues... I'm working with a distorted fluorite
->>> cell
->>> that
->>> should have I4/mmm symmetry. When I use these inputs:
->>>
->>> typat 1 2 2
->>> xred
->>> 0 0 0
->>> 0.25 0.25 0.25
->>> 0.75 0.75 0.75
->>> acell
->>> 1.0 1.0 1.0 angstrom
->>> rprim
->>> 0 2.785 2.745
->>> 2.785 0 2.745
->>> 2.785 2.785 0
->>>
->>> The symmetry finder gives me, correctly, I4/mmm. However, when I simply
->>> double
->>> the cell along the c direction so:
->>>
->>> typat 1 1 2 2 2 2
->>> xred
->>> 0 0 0
->>> 0 0 0.5
->>> 0.25 0.25 0.125
->>> 0.25 0.25 0.625
->>> 0.75 0.75 0.375
->>> 0.75 0.75 0.875
->>> acell
->>> 1.0 1.0 1.0 angstrom
->>> rprim
->>> 0 2.785 2.745
->>> 2.785 0 2.745
->>> 5.57 5.57 0
->>>
->>> ABINIT then thinks I have P1 (non)symmetry. However, a tool such as
->>> FINDSYM at
->>> http://stokes.byu.edu/cgi-bin/iso/findsym.cgi readily verifies that I
->>> still in
->>> fact have I4/mmm symmetry. What could be wrong?
->>>
->>> Thanks--
->>> Bryce
->>>
->>
->>
->>
->> --
->> Quan Phung Manh
->> Khoa Hoá học - ĐH Khoa học tự nhiên - 19 Lê Thánh Tông Hà Nội
->>
->>
->


--

Prof. Aldo Humberto Romero
CINVESTAV-Unidad Queretaro
Libramiento Norponiente 2000
CP 76230, Queretaro, QRO, Mexico
tel: 442 211 9909
fax: 442 211 9938

email: aromero@qro.cinvestav.mx
aldorome@gmail.com
www: qro.cinvestav.mx/~aromero



  • Re: [abinit-forum] Symmetry detected correctly in primitive cell, then not in doubled supercell?, Aldo Humberto Romero, 10/27/2009

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