Discussion:
[Gwyddion-users] Control of Z-axis in 3d view
andres.muniz-piniella
2013-03-07 21:03:57 UTC
Permalink
Collin Becker
2013-03-07 22:32:24 UTC
Permalink
Thanks for the response, that's not quite what I am looking for however. I
have 100nm tall features in one figure, and 300nm tall features in another
figure. I would like to show the two figures side by side with the same
scale bars of 0-300nm to highlight how much shorter the 100nm features
are. However, with limit range on my 100nm features, if I set it to
0-300nm, it still just sets the max to 100. If I use the stretch color
range tool it will adjust the scale bar in the 2d image to exactly what I
need, but when I try to plot in 3d, the 3d seems to default to using the
absolute max and min of the 2d image, rather than scale bar I imposed on
the 2d image.
Modify the image with limit range. Then do 3d image I normally use it to
remove noise peaks with the rms filter. But you can modify the range
manually as you like min and max.
Sent from mobile
Hi all,
I have some features that are about 100nm tall. However I would like my
scale bar to be 0-300nm. In the 2-d image I use the "color range" tool to
accomplish this. However when I plot this in 3d it seems to still use the
min and max values of the features. In other words, it still sets the
range to 0-100nm rather than 0-300nm. Any thoughts? Thanks!
--Collin
--
Collin Becker
------------------------------------------------------------------------------
Symantec Endpoint Protection 12 positioned as A LEADER in The Forrester
Wave(TM): Endpoint Security, Q1 2013 and "remains a good choice" in the
endpoint security space. For insight on selecting the right partner to
tackle endpoint security challenges, access the full report.
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_______________________________________________
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Christian Long
2013-03-07 23:37:30 UTC
Permalink
Collin Becker
2013-03-07 23:52:57 UTC
Permalink
Christian Long
2013-03-08 00:01:08 UTC
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unknown
1970-01-01 00:00:00 UTC
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Hi Collin,

You can use the make1:1 button in the basic options of the 3D view to get
the xy scale and the z scale in proportion in both images. You can then
multiply the number in the value scale box by some factor (say, 5, if you
want 5:1 Z:X) for each image. The Z range in each image will be different,
and the scale bars won't have round numbers, but the scaling of the z bars
in the two different images will be in correct proportion to each other
(i.e., the 100 nm Z scale bar will by 1/3 the height of the 300 nm scale
bar).

If you really need the scale bars to both be 300 nm, you can do some
editing on the bitmap images of the 3D view after you save them. The really
important thing is that the data scale is the same in both figures.

I hope that provides at least a partial solution.

-Chris
Post by Collin Becker
Thanks for the response, that's not quite what I am looking for however.
I have 100nm tall features in one figure, and 300nm tall features in
another figure. I would like to show the two figures side by side with the
same scale bars of 0-300nm to highlight how much shorter the 100nm features
are. However, with limit range on my 100nm features, if I set it to
0-300nm, it still just sets the max to 100. If I use the stretch color
range tool it will adjust the scale bar in the 2d image to exactly what I
need, but when I try to plot in 3d, the 3d seems to default to using the
absolute max and min of the 2d image, rather than scale bar I imposed on
the 2d image.
Modify the image with limit range. Then do 3d image I normally use it to
remove noise peaks with the rms filter. But you can modify the range
manually as you like min and max.
Sent from mobile
Hi all,
I have some features that are about 100nm tall. However I would like my
scale bar to be 0-300nm. In the 2-d image I use the "color range" tool to
accomplish this. However when I plot this in 3d it seems to still use the
min and max values of the features. In other words, it still sets the
range to 0-100nm rather than 0-300nm. Any thoughts? Thanks!
--Collin
--
Collin Becker
------------------------------------------------------------------------------
Symantec Endpoint Protection 12 positioned as A LEADER in The Forrester
Wave(TM): Endpoint Security, Q1 2013 and "remains a good choice" in the
endpoint security space. For insight on selecting the right partner to
tackle endpoint security challenges, access the full report.
http://p.sf.net/sfu/symantec-dev2dev
_______________________________________________
Gwyddion-users mailing list
https://lists.sourceforge.net/lists/listinfo/gwyddion-users
--
Collin Becker
------------------------------------------------------------------------------
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Wave(TM): Endpoint Security, Q1 2013 and "remains a good choice" in the
endpoint security space. For insight on selecting the right partner to
tackle endpoint security challenges, access the full report.
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_______________________________________________
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Hi Collin,<br><br>You can use the make1:1 button in the basic options of the 3D view to get the xy scale and the z scale in proportion in both images. You can then multiply the number in the value scale box by some factor (say, 5, if you want 5:1 Z:X) for each image. The Z range in each image will be different, and the scale bars won&#39;t have round numbers, but the scaling of the z bars in the two different images will be in correct proportion to each other (i.e., the 100 nm Z scale bar will by 1/3 the height of the 300 nm scale bar).<br>

<br>If you really need the scale bars to both be 300 nm, you can do some editing on the bitmap images of the 3D view after you save them. The really important thing is that the data scale is the same in both figures.<br>
<br>
I hope that provides at least a partial solution.<br><br>-Chris<br><br><div class="gmail_quote">On Thu, Mar 7, 2013 at 5:32 PM, Collin Becker <span dir="ltr">&lt;<a href="mailto:***@gmail.com" target="_blank">***@gmail.com</a>&gt;</span> wrote:<br> <blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">Thanks for the response, that&#39;s not quite what I am looking for however.? I have 100nm tall features in one figure, and 300nm tall features in another figure.? I would like to show the two figures side by side with the same scale bars of 0-300nm to highlight how much shorter the 100nm features are.? However, with limit range on my 100nm features, if I set it to 0-300nm, it still just sets the max to 100.? If I use the stretch color range tool it will adjust the scale bar in the 2d image to exactly what I need, but when I try to plot in 3d, the 3d seems to default to using the absolute max and min of the 2d image, rather than scale bar I imposed on the 2d image.<br> <br><div class="gmail_quote"><div><div class="h5">On Thu, Mar 7, 2013 at 4:03 PM, andres.muniz-piniella <span dir="ltr">&lt;<a href="mailto:***@gmail.com" target="_blank">***@gmail.com</a>&gt;</span> wrote:<br> </div></div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div><div class="h5"> <div><div><br></div><div>Modify the image with limit range. Then do 3d image I normally use it to remove noise peaks with the rms filter. But you can modify the range manually as you like min and max.</div><div><br></div> <div><br></div><div><br></div><div><div style="font-size:75%;color:#575757">Sent from mobile</div></div><div><div> <br>Collin Becker &lt;<a href="mailto:***@gmail.com" target="_blank">***@gmail.com</a>&gt; wrote:<br>


Hi all,<br><br>I have some features that are about 100nm tall.  However I would like my scale bar to be 0-300nm.  In the 2-d image I use the &quot;color range&quot; tool to accomplish this.  However when I plot this in 3d it seems to still use the min and max values of the features.  In other words, it still sets the range to 0-100nm rather than 0-300nm.  Any thoughts?  Thanks!<br>



<br>--Collin<br clear="all"><br>-- <br>Collin Becker<br><a href="mailto:***@gmail.com" target="_blank">***@gmail.com</a>
</div></div></div><br></div></div>------------------------------------------------------------------------------<br>
Symantec Endpoint Protection 12 positioned as A LEADER in The Forrester<br>
Wave(TM): Endpoint Security, Q1 2013 and &quot;remains a good choice&quot; in the<br>
endpoint security space. For insight on selecting the right partner to<br>
tackle endpoint security challenges, access the full report.<br>
<a href="http://p.sf.net/sfu/symantec-dev2dev" target="_blank">http://p.sf.net/sfu/symantec-dev2dev</a><br>_______________________________________________<br>
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<br></blockquote></div><span class="HOEnZb"><font color="#888888"><br><br clear="all"><br>-- <br>Collin Becker<br><a href="mailto:***@gmail.com" target="_blank">***@gmail.com</a>
</font></span><br>------------------------------------------------------------------------------<br>
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endpoint security space. For insight on selecting the right partner to<br>
tackle endpoint security challenges, access the full report.<br>
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--000e0ce0cecae548e404d75e3137--
unknown
1970-01-01 00:00:00 UTC
Permalink
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Content-Type: text/plain; charset=ISO-8859-1

Thanks Chris that definitely makes sense and should work. In the long term
is it possible to edit the 3d module code? It would seem like *maybe* an
easy fix to have the software grab the height value from the modified 2d
image rather than from the original data. I think i understand though that
there is a difference between the data processing tools and the image
analysis tools in that the analysis tools do not actually change the data
so the 3d module will not plot that information.
Post by unknown
Hi Collin,
You can use the make1:1 button in the basic options of the 3D view to get
the xy scale and the z scale in proportion in both images. You can then
multiply the number in the value scale box by some factor (say, 5, if you
want 5:1 Z:X) for each image. The Z range in each image will be different,
and the scale bars won't have round numbers, but the scaling of the z bars
in the two different images will be in correct proportion to each other
(i.e., the 100 nm Z scale bar will by 1/3 the height of the 300 nm scale
bar).
If you really need the scale bars to both be 300 nm, you can do some
editing on the bitmap images of the 3D view after you save them. The really
important thing is that the data scale is the same in both figures.
I hope that provides at least a partial solution.
-Chris
Post by Collin Becker
Thanks for the response, that's not quite what I am looking for however.
I have 100nm tall features in one figure, and 300nm tall features in
another figure. I would like to show the two figures side by side with the
same scale bars of 0-300nm to highlight how much shorter the 100nm features
are. However, with limit range on my 100nm features, if I set it to
0-300nm, it still just sets the max to 100. If I use the stretch color
range tool it will adjust the scale bar in the 2d image to exactly what I
need, but when I try to plot in 3d, the 3d seems to default to using the
absolute max and min of the 2d image, rather than scale bar I imposed on
the 2d image.
Modify the image with limit range. Then do 3d image I normally use it to
remove noise peaks with the rms filter. But you can modify the range
manually as you like min and max.
Sent from mobile
Hi all,
I have some features that are about 100nm tall. However I would like my
scale bar to be 0-300nm. In the 2-d image I use the "color range" tool to
accomplish this. However when I plot this in 3d it seems to still use the
min and max values of the features. In other words, it still sets the
range to 0-100nm rather than 0-300nm. Any thoughts? Thanks!
--Collin
--
Collin Becker
------------------------------------------------------------------------------
Symantec Endpoint Protection 12 positioned as A LEADER in The Forrester
Wave(TM): Endpoint Security, Q1 2013 and "remains a good choice" in the
endpoint security space. For insight on selecting the right partner to
tackle endpoint security challenges, access the full report.
http://p.sf.net/sfu/symantec-dev2dev
_______________________________________________
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--
Collin Becker
------------------------------------------------------------------------------
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Wave(TM): Endpoint Security, Q1 2013 and "remains a good choice" in the
endpoint security space. For insight on selecting the right partner to
tackle endpoint security challenges, access the full report.
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_______________________________________________
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------------------------------------------------------------------------------
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Wave(TM): Endpoint Security, Q1 2013 and "remains a good choice" in the
endpoint security space. For insight on selecting the right partner to
tackle endpoint security challenges, access the full report.
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_______________________________________________
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Content-Transfer-Encoding: quoted-printable <p>Thanks Chris that definitely makes sense and should work.� In the long term is it possible to edit the 3d module code?� It would seem like *maybe* an easy fix to have the software grab the height value from the modified 2d image rather than from the original data.� I think i understand though that there is a difference between the data processing tools and the image analysis tools in that the analysis tools do not actually change the data so the 3d module will not plot that information.</p> <div class="gmail_quote">On Mar 7, 2013 6:38 PM, &quot;Christian Long&quot; &lt;<a href="mailto:***@gmail.com">***@gmail.com</a>&gt; wrote:<br type="attribution"><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
Hi Collin,<br><br>You can use the make1:1 button in the basic options of the 3D view to get the xy scale and the z scale in proportion in both images. You can then multiply the number in the value scale box by some factor (say, 5, if you want 5:1 Z:X) for each image. The Z range in each image will be different, and the scale bars won&#39;t have round numbers, but the scaling of the z bars in the two different images will be in correct proportion to each other (i.e., the 100 nm Z scale bar will by 1/3 the height of the 300 nm scale bar).<br>


<br>If you really need the scale bars to both be 300 nm, you can do some editing on the bitmap images of the 3D view after you save them. The really important thing is that the data scale is the same in both figures.<br>

<br>
I hope that provides at least a partial solution.<br><br>-Chris<br><br><div class="gmail_quote">On Thu, Mar 7, 2013 at 5:32 PM, Collin Becker <span dir="ltr">&lt;<a href="mailto:***@gmail.com" target="_blank">***@gmail.com</a>&gt;</span> wrote:<br> <blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">Thanks for the response, that&#39;s not quite what I am looking for however.? I have 100nm tall features in one figure, and 300nm tall features in another figure.? I would like to show the two figures side by side with the same scale bars of 0-300nm to highlight how much shorter the 100nm features are.? However, with limit range on my 100nm features, if I set it to 0-300nm, it still just sets the max to 100.? If I use the stretch color range tool it will adjust the scale bar in the 2d image to exactly what I need, but when I try to plot in 3d, the 3d seems to default to using the absolute max and min of the 2d image, rather than scale bar I imposed on the 2d image.<br> <br><div class="gmail_quote"><div><div>On Thu, Mar 7, 2013 at 4:03 PM, andres.muniz-piniella <span dir="ltr">&lt;<a href="mailto:***@gmail.com" target="_blank">***@gmail.com</a>&gt;</span> wrote:<br> </div></div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div><div> <div><div><br></div><div>Modify the image with limit range. Then do 3d image I normally use it to remove noise peaks with the rms filter. But you can modify the range manually as you like min and max.</div><div><br></div> <div><br></div><div><br></div><div><div style="font-size:75%;color:#575757">Sent from mobile</div></div><div><div> <br>Collin Becker &lt;<a href="mailto:***@gmail.com" target="_blank">***@gmail.com</a>&gt; wrote:<br>



Hi all,<br><br>I have some features that are about 100nm tall.  However I would like my scale bar to be 0-300nm.  In the 2-d image I use the &quot;color range&quot; tool to accomplish this.  However when I plot this in 3d it seems to still use the min and max values of the features.  In other words, it still sets the range to 0-100nm rather than 0-300nm.  Any thoughts?  Thanks!<br>




<br>--Collin<br clear="all"><br>-- <br>Collin Becker<br><a href="mailto:***@gmail.com" target="_blank">***@gmail.com</a>
</div></div></div><br></div></div>------------------------------------------------------------------------------<br>
Symantec Endpoint Protection 12 positioned as A LEADER in The Forrester<br>
Wave(TM): Endpoint Security, Q1 2013 and &quot;remains a good choice&quot; in the<br>
endpoint security space. For insight on selecting the right partner to<br>
tackle endpoint security challenges, access the full report.<br>
<a href="http://p.sf.net/sfu/symantec-dev2dev" target="_blank">http://p.sf.net/sfu/symantec-dev2dev</a><br>_______________________________________________<br>
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<br></blockquote></div><span><font color="#888888"><br><br clear="all"><br>-- <br>Collin Becker<br><a href="mailto:***@gmail.com" target="_blank">***@gmail.com</a>
</font></span><br>------------------------------------------------------------------------------<br>
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unknown
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Hi Collin,

I don't have the expertise to edit the code myself, so I can't comment on
the feasibility of this.

As far as I know, the guy that handles development of the 3D code is quite
busy for the next few weeks. He definitely reads the developers
mailing list<https://lists.sourceforge.net/lists/listinfo/gwyddion-devel>,
so you could try asking there.

Cheers,
Chris
Post by unknown
Thanks Chris that definitely makes sense and should work. In the long
term is it possible to edit the 3d module code? It would seem like *maybe*
an easy fix to have the software grab the height value from the modified 2d
image rather than from the original data. I think i understand though that
there is a difference between the data processing tools and the image
analysis tools in that the analysis tools do not actually change the data
so the 3d module will not plot that information.
Post by unknown
Hi Collin,
You can use the make1:1 button in the basic options of the 3D view to get
the xy scale and the z scale in proportion in both images. You can then
multiply the number in the value scale box by some factor (say, 5, if you
want 5:1 Z:X) for each image. The Z range in each image will be different,
and the scale bars won't have round numbers, but the scaling of the z bars
in the two different images will be in correct proportion to each other
(i.e., the 100 nm Z scale bar will by 1/3 the height of the 300 nm scale
bar).
If you really need the scale bars to both be 300 nm, you can do some
editing on the bitmap images of the 3D view after you save them. The really
important thing is that the data scale is the same in both figures.
I hope that provides at least a partial solution.
-Chris
Post by Collin Becker
Thanks for the response, that's not quite what I am looking for
however. I have 100nm tall features in one figure, and 300nm tall features
in another figure. I would like to show the two figures side by side with
the same scale bars of 0-300nm to highlight how much shorter the 100nm
features are. However, with limit range on my 100nm features, if I set it
to 0-300nm, it still just sets the max to 100. If I use the stretch color
range tool it will adjust the scale bar in the 2d image to exactly what I
need, but when I try to plot in 3d, the 3d seems to default to using the
absolute max and min of the 2d image, rather than scale bar I imposed on
the 2d image.
On Thu, Mar 7, 2013 at 4:03 PM, andres.muniz-piniella <
Modify the image with limit range. Then do 3d image I normally use it
to remove noise peaks with the rms filter. But you can modify the range
manually as you like min and max.
Sent from mobile
Hi all,
I have some features that are about 100nm tall. However I would like
my scale bar to be 0-300nm. In the 2-d image I use the "color range" tool
to accomplish this. However when I plot this in 3d it seems to still use
the min and max values of the features. In other words, it still sets the
range to 0-100nm rather than 0-300nm. Any thoughts? Thanks!
--Collin
--
Collin Becker
------------------------------------------------------------------------------
Symantec Endpoint Protection 12 positioned as A LEADER in The Forrester
Wave(TM): Endpoint Security, Q1 2013 and "remains a good choice" in the
endpoint security space. For insight on selecting the right partner to
tackle endpoint security challenges, access the full report.
http://p.sf.net/sfu/symantec-dev2dev
_______________________________________________
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--
Collin Becker
------------------------------------------------------------------------------
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endpoint security space. For insight on selecting the right partner to
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Hi Collin,<br><br>I don&#39;t have the expertise to edit the code myself, so I can&#39;t comment on the feasibility of this.<br><br>As far as I know, the guy that<span name="Lennart Fricke" class="gD"> handles development of the 3D code is quite busy for the next few weeks. He definitely reads the </span><a href="https://lists.sourceforge.net/lists/listinfo/gwyddion-devel">developers mailing list</a>, so you could try asking there.<br> <br>Cheers,<br>Chris<br><br><div class="gmail_quote">On Thu, Mar 7, 2013 at 6:52 PM, Collin Becker <span dir="ltr">&lt;<a href="mailto:***@gmail.com" target="_blank">***@gmail.com</a>&gt;</span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"> <p>Thanks Chris that definitely makes sense and should work.� In the long term is it possible to edit the 3d module code?� It would seem like *maybe* an easy fix to have the software grab the height value from the modified 2d image rather than from the original data.� I think i understand though that there is a difference between the data processing tools and the image analysis tools in that the analysis tools do not actually change the data so the 3d module will not plot that information.</p> <div class="HOEnZb"><div class="h5"> <div class="gmail_quote">On Mar 7, 2013 6:38 PM, &quot;Christian Long&quot; &lt;<a href="mailto:***@gmail.com" target="_blank">***@gmail.com</a>&gt; wrote:<br type="attribution"><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">


Hi Collin,<br><br>You can use the make1:1 button in the basic options of the 3D view to get the xy scale and the z scale in proportion in both images. You can then multiply the number in the value scale box by some factor (say, 5, if you want 5:1 Z:X) for each image. The Z range in each image will be different, and the scale bars won&#39;t have round numbers, but the scaling of the z bars in the two different images will be in correct proportion to each other (i.e., the 100 nm Z scale bar will by 1/3 the height of the 300 nm scale bar).<br>




<br>If you really need the scale bars to both be 300 nm, you can do some editing on the bitmap images of the 3D view after you save them. The really important thing is that the data scale is the same in both figures.<br>



<br>
I hope that provides at least a partial solution.<br><br>-Chris<br><br><div class="gmail_quote">On Thu, Mar 7, 2013 at 5:32 PM, Collin Becker <span dir="ltr">&lt;<a href="mailto:***@gmail.com" target="_blank">***@gmail.com</a>&gt;</span> wrote:<br> <blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">Thanks for the response, that&#39;s not quite what I am looking for however.? I have 100nm tall features in one figure, and 300nm tall features in another figure.? I would like to show the two figures side by side with the same scale bars of 0-300nm to highlight how much shorter the 100nm features are.? However, with limit range on my 100nm features, if I set it to 0-300nm, it still just sets the max to 100.? If I use the stretch color range tool it will adjust the scale bar in the 2d image to exactly what I need, but when I try to plot in 3d, the 3d seems to default to using the absolute max and min of the 2d image, rather than scale bar I imposed on the 2d image.<br> <br><div class="gmail_quote"><div><div>On Thu, Mar 7, 2013 at 4:03 PM, andres.muniz-piniella <span dir="ltr">&lt;<a href="mailto:***@gmail.com" target="_blank">***@gmail.com</a>&gt;</span> wrote:<br> </div></div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div><div> <div><div><br></div><div>Modify the image with limit range. Then do 3d image I normally use it to remove noise peaks with the rms filter. But you can modify the range manually as you like min and max.</div><div><br></div> <div><br></div><div><br></div><div><div style="font-size:75%;color:#575757">Sent from mobile</div></div><div><div> <br>Collin Becker &lt;<a href="mailto:***@gmail.com" target="_blank">***@gmail.com</a>&gt; wrote:<br>





Hi all,<br><br>I have some features that are about 100nm tall.  However I would like my scale bar to be 0-300nm.  In the 2-d image I use the &quot;color range&quot; tool to accomplish this.  However when I plot this in 3d it seems to still use the min and max values of the features.  In other words, it still sets the range to 0-100nm rather than 0-300nm.  Any thoughts?  Thanks!<br>






<br>--Collin<br clear="all"><br>-- <br>Collin Becker<br><a href="mailto:***@gmail.com" target="_blank">***@gmail.com</a>
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