Dear Neks, I am have attempted to use nek5000, firstly by following some of the examples etc. Now I am trying to create my own simulation, which is based upon the ocyl examples. My efforts simply include creating my own grid points in the .rea file to create a slightly different dimension... I believe I have understood how to define the problem however I continually receive errors when creating the genmap it reads as follows.... Input (.rea) file name: ocyl Input mesh tolerance (default 0.2): NOTE: smaller is better, but generous is more forgiving for bad meshes. 0.2 reading .rea file data ... ERROR: error reading 1 11 24 aborting 510 in routine rdbdry. 1 quit All I have done again is change the dimensions of the elements in the .rea file so I do not see why it would now not work? Thank you for any help in advance, Friedrich.
Dear Friedrich, I recommend running "diff" on the example file and your file. Assuming that the example file works you should then be close to understanding the source of difficulty. Paul ________________________________ From: [email protected] [[email protected]] on behalf of [email protected] [[email protected]] Sent: Wednesday, July 09, 2014 5:57 AM To: [email protected] Subject: [Nek5000-users] Error when creating own mesh Dear Neks, I am have attempted to use nek5000, firstly by following some of the examples etc. Now I am trying to create my own simulation, which is based upon the ocyl examples. My efforts simply include creating my own grid points in the .rea file to create a slightly different dimension... I believe I have understood how to define the problem however I continually receive errors when creating the genmap it reads as follows.... Input (.rea) file name: ocyl Input mesh tolerance (default 0.2): NOTE: smaller is better, but generous is more forgiving for bad meshes. 0.2 reading .rea file data ... ERROR: error reading 1 11 24 aborting 510 in routine rdbdry. 1 quit All I have done again is change the dimensions of the elements in the .rea file so I do not see why it would now not work? Thank you for any help in advance, Friedrich.
Hello, finally, did you solve this problem? I am having the same problem. First I generate a 2D mesh using gmsh, and after that I am using gmsh2nek to create the .rea file. This file seems to be ok. However, when I run genmap, I find the following error: genmap Input (.rea) file name: Cylinder Input mesh tolerance (default 0.2): NOTE: smaller is better, but generous is more forgiving for bad meshes. 0.2 reading .rea file data ... ERROR: error reading 1 1 782 aborting 510 in routine rdbdry. 1 quit What is the problem? Could you help me, please? Thanks SL El 09-07-2014 23:29, [email protected] escribió:
Dear Friedrich,
I recommend running "diff" on the example file and your file. Assuming that the example file works you should then be close to understanding the source of difficulty.
Paul
-------------------------
FROM: [email protected] [[email protected]] on behalf of [email protected] [[email protected]] SENT: Wednesday, July 09, 2014 5:57 AM TO: [email protected] SUBJECT: [Nek5000-users] Error when creating own mesh
Dear Neks,
I am have attempted to use nek5000, firstly by following some of the examples etc.
Now I am trying to create my own simulation, which is based upon the ocyl examples.
My efforts simply include creating my own grid points in the .rea file to create a slightly different dimension... I believe I have understood how to define the problem however I continually receive errors when creating the genmap it reads as follows....
Input (.rea) file name: ocyl Input mesh tolerance (default 0.2): NOTE: smaller is better, but generous is more forgiving for bad meshes. 0.2 reading .rea file data ... ERROR: error reading 1 11 24 aborting 510 in routine rdbdry.
1 quit
All I have done again is change the dimensions of the elements in the .rea file so I do not see why it would now not work?
Thank you for any help in advance,
Friedrich.
_______________________________________________ Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users
Try a lower order mesh in Gmsh. Wei 2016-03-01 4:34 GMT+01:00 <[email protected]>:
Hello,
finally, did you solve this problem? I am having the same problem.
First I generate a 2D mesh using gmsh, and after that I am using gmsh2nek to create the .rea file. This file seems to be ok. However, when I run genmap, I find the following error:
genmap Input (.rea) file name: Cylinder Input mesh tolerance (default 0.2): NOTE: smaller is better, but generous is more forgiving for bad meshes. 0.2 reading .rea file data ... ERROR: error reading 1 1 782 aborting 510 in routine rdbdry.
1 quit
What is the problem? Could you help me, please?
Thanks SL
El 09-07-2014 23:29, [email protected] escribió:
Dear Friedrich,
I recommend running "diff" on the example file and your file. Assuming that the example file works you should then be close to understanding the source of difficulty.
Paul
-------------------------
FROM: [email protected] [[email protected]] on behalf of [email protected] [[email protected]] SENT: Wednesday, July 09, 2014 5:57 AM TO: [email protected] SUBJECT: [Nek5000-users] Error when creating own mesh
Dear Neks,
I am have attempted to use nek5000, firstly by following some of the examples etc.
Now I am trying to create my own simulation, which is based upon the ocyl examples.
My efforts simply include creating my own grid points in the .rea file to create a slightly different dimension... I believe I have understood how to define the problem however I continually receive errors when creating the genmap it reads as follows....
Input (.rea) file name: ocyl Input mesh tolerance (default 0.2): NOTE: smaller is better, but generous is more forgiving for bad meshes. 0.2 reading .rea file data ... ERROR: error reading 1 11 24 aborting 510 in routine rdbdry.
1 quit
All I have done again is change the dimensions of the elements in the .rea file so I do not see why it would now not work?
Thank you for any help in advance,
Friedrich.
_______________________________________________ Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users
_______________________________________________ Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users
-- Wei HE 何偉 School of Aeronautics Universidad Politécnica de Madrid http://www.cfm.upm.es/
Hi, thank you! On the one hand, if I use a high order mesh in Gmsh, then I find an error using gmsh2nek, however the error is different to the one that I posted before. On the other hand, the error that I was asking for is solved: 1) using a low order mesh, 2) using a higher number of nodes to create my computational domain in Gmsh. Cheers SL El 01-03-2016 19:24, [email protected] escribió:
Try a lower order mesh in Gmsh.
Wei
2016-03-01 4:34 GMT+01:00 <[email protected]>:
Hello,
finally, did you solve this problem? I am having the same problem.
First I generate a 2D mesh using gmsh, and after that I am using gmsh2nek to create the .rea file. This file seems to be ok. However, when I run genmap, I find the following error:
genmap Input (.rea) file name: Cylinder Input mesh tolerance (default 0.2): NOTE: smaller is better, but generous is more forgiving for bad meshes. 0.2 reading .rea file data ... ERROR: error reading 1 1 782 aborting 510 in routine rdbdry.
1 quit
What is the problem? Could you help me, please?
Thanks SL
El 09-07-2014 23:29, [email protected] escribió:
Dear Friedrich,
I recommend running "diff" on the example file and your file. Assuming that the example file works you should then be close to understanding the source of difficulty.
Paul
-------------------------
FROM: [email protected] [[email protected]] on behalf of [email protected] [[email protected]] SENT: Wednesday, July 09, 2014 5:57 AM TO: [email protected] SUBJECT: [Nek5000-users] Error when creating own mesh
Dear Neks,
I am have attempted to use nek5000, firstly by following some of the examples etc.
Now I am trying to create my own simulation, which is based upon the ocyl examples.
My efforts simply include creating my own grid points in the .rea file to create a slightly different dimension... I believe I have understood how to define the problem however I continually receive errors when creating the genmap it reads as follows....
Input (.rea) file name: ocyl Input mesh tolerance (default 0.2): NOTE: smaller is better, but generous is more forgiving for bad meshes. 0.2 reading .rea file data ... ERROR: error reading 1 11 24 aborting 510 in routine rdbdry.
1 quit
All I have done again is change the dimensions of the elements in the .rea file so I do not see why it would now not work?
Thank you for any help in advance,
Friedrich.
_______________________________________________ Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users [1]
_______________________________________________ Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users [1]
--
Wei HE 何偉
School of Aeronautics Universidad Politécnica de Madridhttp://www.cfm.upm.es/ [2]
Links: ------ [1] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users [2] http://www.cfm.upm.es/
_______________________________________________ Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users
Dear all, I tried to write all the velocity derivatives into one file, so I added some lines of code into the prepost.f, like subroutine outpost3(v1,v2,v3 $,v4,v5,v6 $,v7,v8,v9 $,vp,vt,name3) include 'SIZE' include 'INPUT' real v1(1),v2(1),v3(1),vp(1),vt(1) real v4(1),v5(1),v6(1) real v7(1),v8(1),v9(1) character*3 name3 itmp=0 if (ifto) itmp=1 call outpost4(v1,v2,v3 $,v4,v5,v6 $,v7,v8,v9 $,vp,vt,itmp,name3) return end c------------------------------------------ subroutine outpost4(v1,v2,v3 $,v4,v5,v6 $,v7,v8,v9 $,vp,vt,nfldt,name3) character*3 name3 logical if_save(ldimt) c ntot1 = nx1*ny1*nz1*nelv ntot1t = nx1*ny1*nz1*nelt ntot2 = nx2*ny2*nz2*nelv if(nfldt.gt.ldimt) then write(6,*) 'ABORT: outpost data too large (nfldt>ldimt)!' call exitt endif c store solution call copy(w1,vxx,ntot1) call copy(w2,vxy,ntot1) call copy(w3,vxz,ntot1) call copy(w4,vyx,ntot1) call copy(w5,vyy,ntot1) call copy(w6,vyz,ntot1) call copy(w7,vzx,ntot1) call copy(w8,vzy,ntot1) call copy(w9,vzz,ntot1) call copy(wp,pr,ntot2) do i = 1,nfldt call copy(wt(1,i),t(1,1,1,1,i),ntot1t) enddo c swap with data to dump call copy(vxx,v1,ntot1) call copy(vxy,v2,ntot1) call copy(vxz,v3,ntot1) call copy(vyx,v4,ntot1) call copy(vyy,v6,ntot1) call copy(vyz,v6,ntot1) call copy(vzx,v7,ntot1) call copy(vzy,v8,ntot1) call copy(vzz,v9,ntot1) call copy(pr,vp,ntot2) do i = 1,nfldt call copy(t(1,1,1,1,i),vt(1,i),ntot1t) enddo c dump data if_save(1) = ifto ifto = .false. if(nfldt.gt.0) ifto = .true. do i = 1,ldimt-1 if_save(i+1) = ifpsco(i) ifpsco(i) = .false. if(i+1.le.nfldt) ifpsco(i) = .true. enddo call prepost(.true.,name3) ifto = if_save(1) do i = 1,ldimt-1 ifpsco(i) = if_save(i+1) enddo c restore solution data call copy(vxx,w1,ntot1) call copy(vxy,w2,ntot1) call copy(vxz,w3,ntot1) call copy(vyx,w4,ntot1) call copy(vyy,w5,ntot1) call copy(vyz,w6,ntot1) call copy(vzx,w7,ntot1) call copy(vzy,w8,ntot1) call copy(vzz,w9,ntot1) call copy(pr,wp,ntot2) do i = 1,nfldt call copy(t(1,1,1,1,i),wt(1,i),ntot1t) enddo return end c--------------------------- in the userchk file, .................. call gradm1(vxx,vxy,vxz,vx) ..................... call outpost3(vxx,vxy,vxz $,vyx,vyy,vyz $,vzx,vzy,vzz $,pr,t,'derivate') ................... there are errors, like this: /Users/wei/nek5_svn/trunk/nek/prepost.f:1998.34: subroutine outpost3(v1,v2,v3 1 Error: Unexpected junk in formal argument list at (1) /Users/wei/nek5_svn/trunk/nek/prepost.f:1999.8: $,v4,v5,v6 1 Error: Invalid character in name at (1) /Users/wei/nek5_svn/trunk/nek/prepost.f:2001.8: $,vp,vt,name3) 1 Error: Invalid character in name at (1) /Users/wei/nek5_svn/trunk/nek/prepost.f:2017.72: $,v7,v8,v9 1 Error: Syntax error in argument list at (1) /Users/wei/nek5_svn/trunk/nek/prepost.f:2018.8: $,vp,vt,itmp,name3) 1 Error: Invalid character in name at (1) /Users/wei/nek5_svn/trunk/nek/prepost.f:2025.15: $,v7,v8,v9 1 Error: Unexpected junk in formal argument list at (1) /Users/wei/nek5_svn/trunk/nek/prepost.f:2026.8: $,vp,vt,nfldt,name3) 1 Error: Invalid character in name at (1) SIZE:5.72: Included at /Users/wei/nek5_svn/trunk/nek/prepost.f:2003: parameter (ldim=3) 1 SIZE:5.72: Included at /Users/wei/nek5_svn/trunk/nek/prepost.f:2028: parameter (ldim=3) 2 Error: Two main PROGRAMs at (1) and (2) make: *** [obj/prepost.o] Error 1 so what should I do? Thanks, Wei
Dear Wei, I would just user outpost and control the fields that are written via ifto, ifxyo, ifvo, ifpo, etc. parameter (l=lx1*ly1*lz1*lelt) common /mystuff/ u1(l),u2(l),u3(l) call gradm1(u1,u2,u3,vx) call outpost(u1,u2,u3,pr,t,'vxd') call gradm1(u1,u2,u3,vy) call outpost(u1,u2,u3,pr,t,'vyd') call gradm1(u1,u2,u3,vz) call outpost(u1,u2,u3,pr,t,'vzd') would do the job. Paul On Thu, 10 Jul 2014, [email protected] wrote:
Dear all,
I tried to write all the velocity derivatives into one file, so I added some lines of code into the prepost.f, like
subroutine outpost3(v1,v2,v3 $,v4,v5,v6 $,v7,v8,v9 $,vp,vt,name3)
include 'SIZE' include 'INPUT'
real v1(1),v2(1),v3(1),vp(1),vt(1) real v4(1),v5(1),v6(1) real v7(1),v8(1),v9(1) character*3 name3
itmp=0 if (ifto) itmp=1 call outpost4(v1,v2,v3 $,v4,v5,v6 $,v7,v8,v9 $,vp,vt,itmp,name3)
return end c------------------------------------------ subroutine outpost4(v1,v2,v3 $,v4,v5,v6 $,v7,v8,v9 $,vp,vt,nfldt,name3) character*3 name3 logical if_save(ldimt) c ntot1 = nx1*ny1*nz1*nelv ntot1t = nx1*ny1*nz1*nelt ntot2 = nx2*ny2*nz2*nelv
if(nfldt.gt.ldimt) then write(6,*) 'ABORT: outpost data too large (nfldt>ldimt)!' call exitt endif
c store solution call copy(w1,vxx,ntot1) call copy(w2,vxy,ntot1) call copy(w3,vxz,ntot1) call copy(w4,vyx,ntot1) call copy(w5,vyy,ntot1) call copy(w6,vyz,ntot1) call copy(w7,vzx,ntot1) call copy(w8,vzy,ntot1) call copy(w9,vzz,ntot1) call copy(wp,pr,ntot2) do i = 1,nfldt call copy(wt(1,i),t(1,1,1,1,i),ntot1t) enddo c swap with data to dump call copy(vxx,v1,ntot1) call copy(vxy,v2,ntot1) call copy(vxz,v3,ntot1) call copy(vyx,v4,ntot1) call copy(vyy,v6,ntot1) call copy(vyz,v6,ntot1) call copy(vzx,v7,ntot1) call copy(vzy,v8,ntot1) call copy(vzz,v9,ntot1) call copy(pr,vp,ntot2) do i = 1,nfldt call copy(t(1,1,1,1,i),vt(1,i),ntot1t) enddo
c dump data if_save(1) = ifto ifto = .false. if(nfldt.gt.0) ifto = .true. do i = 1,ldimt-1 if_save(i+1) = ifpsco(i) ifpsco(i) = .false. if(i+1.le.nfldt) ifpsco(i) = .true. enddo
call prepost(.true.,name3)
ifto = if_save(1) do i = 1,ldimt-1 ifpsco(i) = if_save(i+1) enddo
c restore solution data call copy(vxx,w1,ntot1) call copy(vxy,w2,ntot1) call copy(vxz,w3,ntot1) call copy(vyx,w4,ntot1) call copy(vyy,w5,ntot1) call copy(vyz,w6,ntot1) call copy(vzx,w7,ntot1) call copy(vzy,w8,ntot1) call copy(vzz,w9,ntot1) call copy(pr,wp,ntot2) do i = 1,nfldt call copy(t(1,1,1,1,i),wt(1,i),ntot1t) enddo
return end c---------------------------
in the userchk file, .................. call gradm1(vxx,vxy,vxz,vx) ..................... call outpost3(vxx,vxy,vxz $,vyx,vyy,vyz $,vzx,vzy,vzz $,pr,t,'derivate') ...................
there are errors, like this:
/Users/wei/nek5_svn/trunk/nek/prepost.f:1998.34:
subroutine outpost3(v1,v2,v3 1 Error: Unexpected junk in formal argument list at (1) /Users/wei/nek5_svn/trunk/nek/prepost.f:1999.8:
$,v4,v5,v6 1 Error: Invalid character in name at (1) /Users/wei/nek5_svn/trunk/nek/prepost.f:2001.8:
$,vp,vt,name3) 1 Error: Invalid character in name at (1) /Users/wei/nek5_svn/trunk/nek/prepost.f:2017.72:
$,v7,v8,v9 1 Error: Syntax error in argument list at (1) /Users/wei/nek5_svn/trunk/nek/prepost.f:2018.8:
$,vp,vt,itmp,name3) 1 Error: Invalid character in name at (1) /Users/wei/nek5_svn/trunk/nek/prepost.f:2025.15:
$,v7,v8,v9 1 Error: Unexpected junk in formal argument list at (1) /Users/wei/nek5_svn/trunk/nek/prepost.f:2026.8:
$,vp,vt,nfldt,name3) 1 Error: Invalid character in name at (1) SIZE:5.72: Included at /Users/wei/nek5_svn/trunk/nek/prepost.f:2003:
parameter (ldim=3) 1 SIZE:5.72: Included at /Users/wei/nek5_svn/trunk/nek/prepost.f:2028:
parameter (ldim=3) 2 Error: Two main PROGRAMs at (1) and (2) make: *** [obj/prepost.o] Error 1
so what should I do? Thanks, Wei _______________________________________________ Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users
Thank you Paul, I tried this way. It works. the 9 derivatives have been written in 3 independent files. I checked the data format, e.g. "vxd*****", it looks like x y z dux duy duz is it possible to put vyd and vzd together with vxd? like x y z dux duy duz dvx dvy dyz dwx dwy dwz then it will be much convenient to visualize the du in visit. Thank you very much again! Wei On Jul 10, 2014, at 8:22 PM, [email protected] wrote:
Dear Wei,
I would just user outpost and control the fields that are written via ifto, ifxyo, ifvo, ifpo, etc.
parameter (l=lx1*ly1*lz1*lelt) common /mystuff/ u1(l),u2(l),u3(l) call gradm1(u1,u2,u3,vx) call outpost(u1,u2,u3,pr,t,'vxd')
call gradm1(u1,u2,u3,vy) call outpost(u1,u2,u3,pr,t,'vyd')
call gradm1(u1,u2,u3,vz) call outpost(u1,u2,u3,pr,t,'vzd')
would do the job.
Paul
On Thu, 10 Jul 2014, [email protected] wrote:
Dear all,
I tried to write all the velocity derivatives into one file, so I added some lines of code into the prepost.f, like
subroutine outpost3(v1,v2,v3 $,v4,v5,v6 $,v7,v8,v9 $,vp,vt,name3)
include 'SIZE' include 'INPUT'
real v1(1),v2(1),v3(1),vp(1),vt(1) real v4(1),v5(1),v6(1) real v7(1),v8(1),v9(1) character*3 name3
itmp=0 if (ifto) itmp=1 call outpost4(v1,v2,v3 $,v4,v5,v6 $,v7,v8,v9 $,vp,vt,itmp,name3)
return end c------------------------------------------ subroutine outpost4(v1,v2,v3 $,v4,v5,v6 $,v7,v8,v9 $,vp,vt,nfldt,name3) character*3 name3 logical if_save(ldimt) c ntot1 = nx1*ny1*nz1*nelv ntot1t = nx1*ny1*nz1*nelt ntot2 = nx2*ny2*nz2*nelv
if(nfldt.gt.ldimt) then write(6,*) 'ABORT: outpost data too large (nfldt>ldimt)!' call exitt endif
c store solution call copy(w1,vxx,ntot1) call copy(w2,vxy,ntot1) call copy(w3,vxz,ntot1) call copy(w4,vyx,ntot1) call copy(w5,vyy,ntot1) call copy(w6,vyz,ntot1) call copy(w7,vzx,ntot1) call copy(w8,vzy,ntot1) call copy(w9,vzz,ntot1) call copy(wp,pr,ntot2) do i = 1,nfldt call copy(wt(1,i),t(1,1,1,1,i),ntot1t) enddo c swap with data to dump call copy(vxx,v1,ntot1) call copy(vxy,v2,ntot1) call copy(vxz,v3,ntot1) call copy(vyx,v4,ntot1) call copy(vyy,v6,ntot1) call copy(vyz,v6,ntot1) call copy(vzx,v7,ntot1) call copy(vzy,v8,ntot1) call copy(vzz,v9,ntot1) call copy(pr,vp,ntot2) do i = 1,nfldt call copy(t(1,1,1,1,i),vt(1,i),ntot1t) enddo
c dump data if_save(1) = ifto ifto = .false. if(nfldt.gt.0) ifto = .true. do i = 1,ldimt-1 if_save(i+1) = ifpsco(i) ifpsco(i) = .false. if(i+1.le.nfldt) ifpsco(i) = .true. enddo
call prepost(.true.,name3)
ifto = if_save(1) do i = 1,ldimt-1 ifpsco(i) = if_save(i+1) enddo
c restore solution data call copy(vxx,w1,ntot1) call copy(vxy,w2,ntot1) call copy(vxz,w3,ntot1) call copy(vyx,w4,ntot1) call copy(vyy,w5,ntot1) call copy(vyz,w6,ntot1) call copy(vzx,w7,ntot1) call copy(vzy,w8,ntot1) call copy(vzz,w9,ntot1) call copy(pr,wp,ntot2) do i = 1,nfldt call copy(t(1,1,1,1,i),wt(1,i),ntot1t) enddo
return end c---------------------------
in the userchk file, .................. call gradm1(vxx,vxy,vxz,vx) ..................... call outpost3(vxx,vxy,vxz $,vyx,vyy,vyz $,vzx,vzy,vzz $,pr,t,'derivate') ...................
there are errors, like this:
/Users/wei/nek5_svn/trunk/nek/prepost.f:1998.34:
subroutine outpost3(v1,v2,v3 1 Error: Unexpected junk in formal argument list at (1) /Users/wei/nek5_svn/trunk/nek/prepost.f:1999.8:
$,v4,v5,v6 1 Error: Invalid character in name at (1) /Users/wei/nek5_svn/trunk/nek/prepost.f:2001.8:
$,vp,vt,name3) 1 Error: Invalid character in name at (1) /Users/wei/nek5_svn/trunk/nek/prepost.f:2017.72:
$,v7,v8,v9 1 Error: Syntax error in argument list at (1) /Users/wei/nek5_svn/trunk/nek/prepost.f:2018.8:
$,vp,vt,itmp,name3) 1 Error: Invalid character in name at (1) /Users/wei/nek5_svn/trunk/nek/prepost.f:2025.15:
$,v7,v8,v9 1 Error: Unexpected junk in formal argument list at (1) /Users/wei/nek5_svn/trunk/nek/prepost.f:2026.8:
$,vp,vt,nfldt,name3) 1 Error: Invalid character in name at (1) SIZE:5.72: Included at /Users/wei/nek5_svn/trunk/nek/prepost.f:2003:
parameter (ldim=3) 1 SIZE:5.72: Included at /Users/wei/nek5_svn/trunk/nek/prepost.f:2028:
parameter (ldim=3) 2 Error: Two main PROGRAMs at (1) and (2) make: *** [obj/prepost.o] Error 1
so what should I do? Thanks, Wei _______________________________________________ Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users
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