<div dir="ltr">So I have done the following test. I have created a xmf file of a grid in cylindrical coordinates "grid3d_cyl.xmf" specified as Topology Type 3DSMesh and Geometry Type XYZ. That is a full 3D array is written:<div>
<br></div><div><div><?xml version="1.0" ?></div><div><!DOCTYPE Xdmf SYSTEM "Xdmf.dtd" []></div><div><Xdmf Version="2.2"></div><div><Domain></div><div><Grid GridType="Uniform"></div>
<div><Topology TopologyType="3DSMesh" Dimensions=" 30 70 40"/></div><div><Geometry GeometryType="XYZ"></div><div><DataItem Dimensions="84000 3" NumberType="Float" Precision="4" Format="XML"></div>
</div><div>....</div><div>....</div><div>....</div><div><div></DataItem></div><div></Geometry></div><div></Grid></div><div></Domain></div><div></Xdmf></div></div><div><br></div><div style>The grid is 30x70x40 and the file "grid3d_cyl.xmf" is 15.8 MB large. When I read this into Paraview the information windows shows it uses 0.98MB of memory.</div>
<div style><br></div><div style>I then create a grid in cartesian coordinates "grid3d_car" specified as Topology Type 3DRectMesh and Geometry Type VXVYVZ. Here instead of the full 3D array I write thee 1D arrays, one for each coordinates. The file looks like:</div>
<div style><br></div><div style><div><?xml version="1.0" ?></div><div><!DOCTYPE Xdmf SYSTEM "Xdmf.dtd" []></div><div><Xdmf Version="2.2"></div><div><Domain></div><div>
<Grid GridType="Uniform"></div><div><Topology TopologyType="3DRectMesh" Dimensions=" 30 70 40"/></div><div><Geometry GeometryType="VXVYVZ"></div><div><DataItem Dimensions=" 40" NumberType="Float" Precision="4" Format="XML"></div>
<div> 0.0000 1.0000 2.0000 3.0000 4.0000 5.0000 6.0000 7.0000 8.0000 9.0000 10.0000 11.0000 12.0000 13.0000 14.0000 15.0000 16.0000 17.0000 18.0000 19.0000 20.0000 21.0000 22.0000 23.0000 24.0000 25.0000 26.0000 27.0000 28.0000 29.0000 30.0000 31.0000 32.0000 33.0000 34.0000 35.0000 36.0000 37.0000 38.0000 39.0000</div>
<div></DataItem></div><div><DataItem Dimensions=" 70" NumberType="Float" Precision="4" Format="XML"></div><div> 0.0000 0.0911 0.1821 0.2732 0.3642 0.4553 0.5464 0.6374 0.7285 0.8195 0.9106 1.0017 1.0927 1.1838 1.2748 1.3659 1.4570 1.5480 1.6391 1.7302 1.8212 1.9123 2.0033 2.0944 2.1855 2.2765 2.3676 2.4586 2.5497 2.6408 2.7318 2.8229 2.9139 3.0050 3.0961 3.1871 3.2782 3.3692 3.4603 3.5514 3.6424 3.7335 3.8245 3.9156 4.0067 4.0977 4.1888 4.2799 4.3709 4.4620 4.5530 4.6441 4.7352 4.8262 4.9173 5.0083 5.0994 5.1905 5.2815 5.3726 5.4636 5.5547 5.6458 5.7368 5.8279 5.9189 6.0100 6.1011 6.1921 6.2832</div>
<div></DataItem></div><div><DataItem Dimensions=" 30" NumberType="Float" Precision="4" Format="XML"></div><div> 1.0000 2.0000 3.0000 4.0000 5.0000 6.0000 7.0000 8.0000 9.0000 10.0000 11.0000 12.0000 13.0000 14.0000 15.0000 16.0000 17.0000 18.0000 19.0000 20.0000 21.0000 22.0000 23.0000 24.0000 25.0000 26.0000 27.0000 28.0000 29.0000 30.0000</div>
<div></DataItem></div><div></Geometry></div><div></Grid></div><div></Domain></div><div></Xdmf></div><div><br></div><div style>The gris is still 30x70x40 but the file "grid3d_car.xmf" is more compact, it is only 2.2 KB in size. When I read it into Paraview the information windows shows it uses only 0.003MB. So far so good, I end up saving space both on the hard drive and in memory.</div>
<div style><br></div><div style>I then convert the cartesian grid to cylindrical coordinates using the CleantoGrid Filter and also a programmable Filter:</div><div style><br></div><div style>
<p style="margin:0px">pdi = self.GetInput()</p>
<p style="margin:0px">pdo = self.GetOutput()</p>
<p style="margin:0px">newPoints = vtk.vtkPoints()</p>
<p style="margin:0px">numPoints = pdi.GetNumberOfPoints()</p>
<p style="margin:0px">for i in range(0, numPoints):</p>
<p style="margin:0px"> coord = pdi.GetPoint(i)</p>
<p style="margin:0px"> x, y, z = coord[:3]</p>
<p style="margin:0px"> r = x * cos(y)</p>
<p style="margin:0px"> t = x * sin(y)</p>
<p style="margin:0px"> newPoints.InsertPoint(i, r, t, z)</p>
<p style="margin:0px">pdo.SetPoints(newPoints)</p><p style="margin:0px"><br></p><p style="margin:0px">The information window in Paraview shows that The CleanToGrid Filter uses 7.2 MB and the ProgrammableFilter another 7.1MB so in total the cartesian to cylindrical conversion uses 14.3 MB. That's a huge memory penalty. Here's a summary:</p>
<p style="margin:0px"><br></p><p style="margin:0px">File Size Memory</p><p style="margin:0px">grid3d_cyl.xmf 15.8MB 0.98MB</p></div></div><div style>grid3d_car.xmf 2.2KB 0.003MB</div>
<div style>CleanToGrid - 7.2MB</div><div style>Programmable - 7.1MB</div><div style><br></div><div style>Since both grids contain the exact same coordinate information I would expect the approach of converting the grid from cartesian to cylindrical to not take more than 0.98MB of memory, instead it takes 14.3MB. Does it make any sense? Am I doing sth wrong? Can I avoid the memory penalty?</div>
<div style><br></div><div style>Thank you,</div><div style><br></div><div style>Nikos</div></div><div class="gmail_extra"><br><br><div class="gmail_quote">On Fri, Apr 5, 2013 at 3:48 AM, Felipe Bordeu <span dir="ltr"><<a href="mailto:felipe.bordeu@ec-nantes.fr" target="_blank">felipe.bordeu@ec-nantes.fr</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<div bgcolor="#FFFFFF" text="#000000">
<div>By "pipelines", I think you want to say
"filters". I do not know how to delete intermediary results. <br>
One way is to apply a filter and then save the result ("File"->
"Save Data"). So you can open it later without the deed to
recreate the hole pipeline.<br>
<br>
Felipe<br>
<br>
Le 04/04/2013 19:51, Nikolaos Beratlis a écrit :<br>
</div><div><div class="h5">
<blockquote type="cite">
<div dir="ltr">Hi Felipe,
<div><br>
</div>
<div>When I try this script to transform from cartesian to
cylindrical coordinates after I have applied the CleantoGrid
Filter:</div>
<div><br>
</div>
<div>
<div style="font-family:arial,sans-serif;font-size:13px">
<div style="margin:0px">pdi = self.GetInput()</div>
<div style="margin:0px">pdo = self.GetOutput()</div>
<div style="margin:0px">newPoints = vtk.vtkPoints()</div>
<div style="margin:0px">numPoints = pdi.GetNumberOfPoints()</div>
<div style="margin:0px">for i in range(0, numPoints):</div>
<div style="margin:0px">coord = pdi.GetPoint(i)</div>
<div style="margin:0px">x, y, z = coord[:3]</div>
<div style="margin:0px">r = x * cos(y)</div>
<div style="margin:0px">
t = x * sin(y)</div>
<div style="margin:0px">newPoints.InsertPoint(i, r, t, z)</div>
<div style="margin:0px">pdo.SetPoints(newPoints)</div>
</div>
<div style="font-family:arial,sans-serif;font-size:13px;margin:0px">pdo.GetPointData().AddArray(pdi.GetPointData().GetArray(0))</div>
<div style="font-family:arial,sans-serif;font-size:13px;margin:0px">pdo.GetPointData().AddArray(pdi.GetPointData().GetArray(1))</div>
<div style="font-family:arial,sans-serif;font-size:13px;margin:0px">pdo.GetPointData().AddArray(pdi.GetPointData().GetArray(2))</div>
</div>
<div style="font-family:arial,sans-serif;font-size:13px;margin:0px"><br>
</div>
<div style="font-family:arial,sans-serif;font-size:13px;margin:0px">it
creates two more pipelines, one for CleantoGrid and one for
Programmable Filter. Both pipelines are linked to the original
pipeline and both pipelines require the same memory as the
original pipeline. Is there a way to to delete the previous
two pipelines (original with cartesian coordinates and
cleantoGrid) so that I only use one memory amount and not
three?</div>
<div style="font-family:arial,sans-serif;font-size:13px;margin:0px"><br>
</div>
<div style="font-family:arial,sans-serif;font-size:13px;margin:0px">Nikos</div>
</div>
<div class="gmail_extra"><br>
<br>
<div class="gmail_quote">
On Wed, Apr 3, 2013 at 12:05 PM, Felipe Bordeu <span dir="ltr"><<a href="mailto:felipe.bordeu@ec-nantes.fr" target="_blank">felipe.bordeu@ec-nantes.fr</a>></span>
wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<div bgcolor="#FFFFFF" text="#000000">
<div>you need to copy the point data: add this line to the
end of your script:<br>
<br>
<p style="margin-top:0px;margin-bottom:0px;margin-left:0px;margin-right:0px;text-indent:0px">pdo.GetPointData().AddArray(pdi.GetPointData().GetArray(0))</p>
<br>
this will work only for one field, you can put this line
inside a loop to add all the pointdata.<br>
<br>
Felipe<br>
<br>
Le 03/04/2013 17:59, Nikolaos Beratlis a écrit :<br>
</div>
<div>
<div>
<blockquote type="cite">
<div dir="ltr">I did and it shows me the transformed
grid, but the ProgrammableFilter doesn't contain
the variable var. I cannot plot contours. Should I
change the script?</div>
<div class="gmail_extra"><br>
<br>
<div class="gmail_quote"> On Wed, Apr 3, 2013 at
11:48 AM, Felipe Bordeu <span dir="ltr"><<a href="mailto:felipe.bordeu@ec-nantes.fr" target="_blank">felipe.bordeu@ec-nantes.fr</a>></span>
wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<div bgcolor="#FFFFFF" text="#000000">
<div>You must apply the programmablefilter
to the cleantoGrid not to the var3d.xmf. <br>
<br>
look at the screenshot.<br>
<br>
Felipe<br>
<br>
<img src="cid:part3.09070304.06020303@ec-nantes.fr" alt=""><br>
<br>
Le 03/04/2013 17:43, Nikolaos Beratlis a
écrit :<br>
</div>
<div>
<div>
<blockquote type="cite">
<div dir="ltr">Hi Felipe,
<div><br>
</div>
<div>I applied the CleanToGrid
Filter first and then applied the
following script:</div>
<div>
<p style="margin:0px"><br>
</p>
<p style="margin:0px">pdi =
self.GetInput()</p>
<p style="margin:0px">pdo =
self.GetOutput()</p>
<p style="margin:0px">newPoints =
vtk.vtkPoints()</p>
<p style="margin:0px">numPoints =
pdi.GetNumberOfPoints()</p>
<p style="margin:0px">for i in
range(0, numPoints):</p>
<p style="margin:0px"> coord =
pdi.GetPoint(i)</p>
<p style="margin:0px"> x, y, z =
coord[:3]</p>
<p style="margin:0px"> r = x * <span style="background-color:rgb(243,243,243)"><font color="#ff0000">cos</font></span>(y)</p>
<p style="margin:0px"> t = x * <font color="#ff0000">sin</font>(y)</p>
<p style="margin:0px">
newPoints.InsertPoint(i, r, t,
z)</p>
<p style="margin:0px">pdo.SetPoints(newPoints)</p>
</div>
<div><br>
</div>
<div>Notice the indentation and also
the change of the cos(y) and
sin(y) assignments. </div>
<div><br>
</div>
<div>but I got this error:</div>
<br>
Traceback (most recent call last):<br>
<br>
File "<string>", line 26, in
<module><br>
<br>
File "<string>", line 12, in
RequestData<br>
<br>
AttributeError: SetPoints
<div>
<p style="margin:0px"> </p>
</div>
<div><br>
</div>
<div>What am I doing wrong?</div>
</div>
<div class="gmail_extra"><br>
<br>
<div class="gmail_quote">On Wed, Apr
3, 2013 at 11:13 AM, Felipe Bordeu
<span dir="ltr"><<a href="mailto:felipe.bordeu@ec-nantes.fr" target="_blank">felipe.bordeu@ec-nantes.fr</a>></span>
wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<div bgcolor="#FFFFFF" text="#000000">
<div>apply a CleanToGrid
filter before the python
programmable filter and this
is a corrected version of
your script:<br>
<br>
<p style="margin-top:0px;margin-bottom:0px;margin-left:0px;margin-right:0px;text-indent:0px">pdi
= self.GetInput()</p>
<p style="margin-top:0px;margin-bottom:0px;margin-left:0px;margin-right:0px;text-indent:0px">pdo
= self.GetOutput()</p>
<div>
<p style="margin-top:0px;margin-bottom:0px;margin-left:0px;margin-right:0px;text-indent:0px">newPoints
= vtk.vtkPoints()</p>
<p style="margin-top:0px;margin-bottom:0px;margin-left:0px;margin-right:0px;text-indent:0px">numPoints
=
pdi.GetNumberOfPoints()</p>
<p style="margin-top:0px;margin-bottom:0px;margin-left:0px;margin-right:0px;text-indent:0px">for
i in range(0,
numPoints):</p>
<p style="margin-top:0px;margin-bottom:0px;margin-left:0px;margin-right:0px;text-indent:0px">
coord = pdi.GetPoint(i)</p>
<p style="margin-top:0px;margin-bottom:0px;margin-left:0px;margin-right:0px;text-indent:0px">
x, y, z = coord[:3]</p>
<p style="margin-top:0px;margin-bottom:0px;margin-left:0px;margin-right:0px;text-indent:0px">
r = x * sin(y)</p>
<p style="margin-top:0px;margin-bottom:0px;margin-left:0px;margin-right:0px;text-indent:0px">
t = x * cos(y)</p>
<p style="margin-top:0px;margin-bottom:0px;margin-left:0px;margin-right:0px;text-indent:0px">
newPoints.InsertPoint(i,
r, t, z)</p>
<p style="margin-top:0px;margin-bottom:0px;margin-left:0px;margin-right:0px;text-indent:0px">pdo.SetPoints(newPoints)</p>
<br>
<br>
</div>
Felipe<br>
<br>
Le 03/04/2013 04:55,
Nikolaos Beratlis a écrit :<br>
</div>
<blockquote type="cite">
<div>
<div>
<div dir="ltr">
<div>Hi,</div>
<div><br>
</div>
I am reading the
following xmf file
(attached as
var3d.xmf) into
Paraview:
<div><br>
</div>
<div>
<div><?xml
version="1.0"
?></div>
<div><!DOCTYPE
Xdmf SYSTEM
"Xdmf.dtd" []></div>
<div><Xdmf
Version="2.2"></div>
<div><Domain></div>
<div><Grid
GridType="Uniform"></div>
<div><Topology
TopologyType="3DRectMesh"
Dimensions=" 2
4 3"/></div>
<div><Geometry
GeometryType="VXVYVZ"></div>
<div><DataItem
Dimensions=" 3"
NumberType="Float"
Precision="4"
Format="XML"></div>
<div> 0.0000
1.0000 2.0000</div>
<div></DataItem></div>
<div><DataItem
Dimensions=" 4"
NumberType="Float"
Precision="4"
Format="XML"></div>
<div> 0.0000 <a href="tel:2.0944%20%C2%A0%204.1888" value="+12094441888" target="_blank">2.0944
4.1888</a>
6.2832</div>
<div></DataItem></div>
<div><DataItem
Dimensions=" 2"
NumberType="Float"
Precision="4"
Format="XML"></div>
<div> 1.0000
2.0000</div>
<div></DataItem></div>
<div></Geometry></div>
<div> <Attribute
Name="var"
AttributeType="Scalar"
Center="Node"></div>
<div><DataItem
Dimensions="24"
NumberType="Float"
Precision="4"
Format="XML"></div>
<div>0 1 2 3 4 5 6 7
8 9 10 11 12 13 14
15 16 17 18 19 20
21 22 23</div>
<div></DataItem></div>
<div></Attribute></div>
<div></Grid></div>
<div></Domain></div>
<div></Xdmf></div>
<div><br>
</div>
<div> The grid is a
3D orthogonal grid
read in cartesian
coordinates (see
attached image
showing grid and
contours of
variable). I then
want to transform
the grid from
cartesian to
cylindrical
coordinates. I
tried using the
following Python
script:</div>
<div><br>
</div>
<div>
<p style="margin:0px">pdi
=
self.GetPolyDataInput()</p>
<p style="margin:0px">pdo
=
self.GetPolyDataOutput()</p>
<p style="margin:0px">newPoints
=
vtk.vtkPoints()</p>
<p style="margin:0px">numPoints
=
pdi.GetNumberOfPoints()</p>
<p style="margin:0px">for
i in range(0,
numPoints):</p>
<p style="margin:0px">
coord =
pdi.GetPoint(i)</p>
<p style="margin:0px">
x, y, z =
coord[:3]</p>
<p style="margin:0px">
r = x * sin(y)</p>
<p style="margin:0px">
t = x * cos(y)</p>
<p style="margin:0px">
newPoints.InsertPoint(i,
r, t, z)</p>
<p style="margin:0px">pdo.SetPoints(newPoints)</p>
<p style="margin:0px"><br>
</p>
<p style="margin:0px">with
Output Data Set
Type chosen to
be the Same as
Input, but I get
this error:</p>
<p style="margin:0px"><br>
</p>
Traceback (most
recent call last):<br>
File
"<string>",
line 26, in
<module><br>
File
"<string>",
line 12, in
RequestData<br>
AttributeError:
'NoneType' object
has no attribute
'SetPoints'</div>
</div>
<div><br>
</div>
<div>I have no
experience with
Python scripting.
What am I doing
wrong?</div>
<div><br>
</div>
<div>Thank you,</div>
<div><br>
</div>
<div>Nikos</div>
</div>
<br>
<fieldset></fieldset>
<br>
</div>
</div>
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Ingénieur de Recherche
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Institut GeM - UMR CNRS 6183
École Centrale Nantes
1 Rue de La Noë, 44321 Nantes, FRANCE
-------------------------------------</pre>
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Ingénieur de Recherche
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<a href="mailto:Felipe.Bordeu@ec-nantes.fr" target="_blank">Felipe.Bordeu@ec-nantes.fr</a>
Institut GeM - UMR CNRS 6183
École Centrale Nantes
1 Rue de La Noë, 44321 Nantes, FRANCE
-------------------------------------</pre>
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Institut GeM - UMR CNRS 6183
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1 Rue de La Noë, 44321 Nantes, FRANCE
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<pre cols="72">--
Felipe Bordeu Weldt
Ingénieur de Recherche
-------------------------------------
Tél. : <a href="tel:33%20%280%292%2040%2037%2016" value="+13302403716" target="_blank">33 (0)2 40 37 16</a> 57
Fax. : <a href="tel:33%20%280%292%2040%2074%2074" value="+13302407474" target="_blank">33 (0)2 40 74 74</a> 06
<a href="mailto:Felipe.Bordeu@ec-nantes.fr" target="_blank">Felipe.Bordeu@ec-nantes.fr</a>
Institut GeM - UMR CNRS 6183
École Centrale Nantes
1 Rue de La Noë, 44321 Nantes, FRANCE
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