Andrés Muñiz Piniella | 16 Apr 20:30 2015
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Multi section cuts

Hello all,

Has anybody come up with a script that can do multiple sections in on go?

Example: I have several step features in an image.

I want to do three parallel one pixel wide sections on each step feature. I will then average. This way I avoid nasty features.

Ways that I figure doing it:
A) do a script that will do 2 paralell sections at a certain distance from the already existing section lines.
B) change the average feature so it only takes3 sections to do the average. Middle point of data and edges points of data. Less visual but more automatic.

Any suggestions?

Regards,
Andrés.
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Christian K | 16 Apr 15:04 2015
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creating graphs

Hi,

I cannot figure how to create graphs. All items in the graph menu are greyed
out. I need to analyse step heights for which I use the 'Extract profiles'
tool. But then I am unable to process the results with the graph tools. Am I
doing something wrong?
I am usgin gwyddion 2.40 on windows 7

Thanks for any hints, Christian

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Andrés Muñiz Piniella | 8 Apr 11:36 2015
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fit graph: step height

Hello Users,

When fitting a step (or any other type I guess)  to a section it gives me a value of "error". Would this be an uncertainty with k=1 or k=2?


If so, could we have it renamed as uncertainty rather than error?

Regards,
Andres

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Judy Phan | 26 Mar 17:36 2015

Profiles x and y scales

Hello,

I'd like to extract profiles of my grains to a plot. I understand that there is profiles tool but the x and y scales are in disagreement. Is there a way I could change the settings to have them in the same unit?

Thanks,
--

Judy Phan

Master of Science in Chemical Engineering, 2015


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Shahid Ali | 11 Mar 15:19 2015
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Grain size measurement by AFM

Dear all,
I have taken AFM image from asylum MFP-3D . 1*1 um image. now I have to measure it's grain size. I have measured it by threshold method and watershed method. The grain size was 3.9 nm and 11 nm respectively. The sample was InGaN sample. now I am confused how to check which one is correct and how to get accurate grain size from gwyddion. do I have to take another image means bigger or smaller image or 1*1 um is fine.
Best shahid

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Matus Michael | 10 Mar 09:58 2015
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Open profiles?

By chance I discovered the possibility to open profile files (of *.x3p type) directly in gwyddion! In
section 3.5 of the documentation this is explicitly negated.

My question: is it intended to keep this feature (which I would highly appreciate)?

Dr. Michael Matus
-------------------------------------------------------------
BEV - Bundesamt fuer Eich- und Vermessungswesen
Leiter des Referates Dimensionelle Groessen, Frequenz, Zeit
(Head of Section, Dimensional Quantities, Frequency, Time)
Tel. +43 1 21110-6540, Fax +43 1 21110-996000
1160 Wien, Arltgasse 35, Austria
michael.matus@...
www.bev.gv.at
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David Nečas (Yeti | 7 Feb 22:44 2015
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Gwyddion 2.40 was released


Gwyddion 2.40 is now available for download at

  https://sourceforge.net/projects/gwyddion/files/gwyddion/2.40/
  (all released files)

  http://gwyddion.net/download/2.40/
  (source code)

Released files are signed with PGP/GnuPG key

  "David Nečas (Yeti) <yeti <at> gwyddion.net>", id 62A07732
  fingerprint = 263F 9B1E C1E0 5261 C689  D83B 00FD D1D0 62A0 7732

-----------------------------------------------------------------------------

This is a stable version continuing the 2.x series, backward compatible with
previous 2.x versions.

More information about Gwyddion is available at

  http://gwyddion.net/

Bugs should be reported to

  klapetek <at> gwyddion.net

or the mailing list.

-----------------------------------------------------------------------------

Summary of changes:

Libraries:
- libgwyprocess: GwySpectra has properties specifying the abscissa and
  ordinate labels for the spectra curves.
- libgwyprocess: Pass a NULL error array to gwy_nlfit_preset_fit() works now.
- libgwyprocess: New fitting presets: Two-Gaussian PSDF and parabolic step.
- libgwydgets: In 3D View masked data points can be made completely
  transparent.
- libgwyddion: Aborting/crashing on deserialisation of invalid-sized arrays
  was fixed.

Modules:
- Flatten base (new): Flattens the base of a surface with positive features.
- K-medians (new): K-medians clustering for volume data.
- SEM image (new): Presentation resembling SEM image corresponding to given
  topography.
- XYZ export (new): Exports channel values to simple XYZ text file.
- Image export: It is possible do disable the frame if there are no rulers.
  False colour rendering for inverted gradients and default non-full mappings
  was corrected.  Title centering for non-square images was corrected.  A mask
  colour sample can be rendered below the image with a label.  Error message
  saying ‘Success’ when exporting BMP files was fixed.
- APE DAX: Can also import APDT files now.
- NetCDF: The new setpoint variable ‘sranger_mk2_hwi_mix0_set_point’ is used
  for metadata, if found.
- NRRD: 3D data with all three resolutions large are loaded a volume data
  instead of sequences of channels.
- Merge: Can mask pixels in the result that were outside of either image.  It
  is also possible to automatically crop the result to only inside pixels.
  A new merge type ‘Interpolation’ produces smoother transitions than the old
  ‘Smooth’ which was renamed to ‘Average’.
- Spectro tool: Uses abscissa and ordinate labels from the spectra object, if
  present.
- Omicron, Nanoeducator: X and Y spectra axis labels are set according to the
  imported spectrum type.
- Euclidean distance transform: Function for mask thinning was added.
- Mark by threshold: Percentage interpretation for inverted height was
  changed to be less confusing.
- Raw XYZ: The square image option is not enforced on regular grid data when
  it is not available in the dialog.
- WITec Project: WIT_PR06 recognized as another variant of magic header.
- APE DAX, NanoObserver, NanoScanTech, OpenGPS, SPMx: Opening of files with
  non-ASCII names should work better on MS Windows.

Other:
- Does not attempt to build the hdrimage module with C++ compiler unavailable.

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Thanks all who contributed,

Yeti

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Moriceau, Julien | 6 Jan 16:35 2015

NaN value in statistical measurment

Hello,

It is my first message to you guys because I am struggling with gwyddion (I precise I am a new user).

I have AFM files that I want to analyze, but a lot of these files are containing NaN value.

I can open these images without too much trouble but the software cannot calculate any of the advanced statistical data (as HHCF that I am interested in) because, I guess, of the NaN values.

Is there any way to correct this problem? Or not to take in account NaN during calculation? (the calculation is working well with the height distribution for example).

Thanks a lot for your help.

Regards,

--

Julien

 

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Deepak Ramtirthe | 18 Dec 10:26 2014
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Gwyddion User

Dear sir,
   I want to analyse the data which is obtained from profilometry. This data is in the form of ".xlsx".How can I insert this data in Gwyddion??
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Judy Phan | 20 Nov 23:36 2014

extract profile vs grain distributions

Hi,
Which sets of data in the grain distributions tool that are corresponding to the data when you use the extract profile tool? Obviously, the profile you get when using the extract profile tool depends on each grain and where on the grain you draw the line. I guess my question is that is there a way I can export the maximum, minimum or average of those data (x and y)? Does the grain distribution tool have a way to scan each grain for all of its profiles and give you a max/min/average values? I know the distributions give you many types of heights and widths but which one of those corresponding to the profile extract tool x and y?
Thanks,

--

Judy Phan

Master of Science in Chemical Engineering, 2015

Bachelor of Science in Chemical Engineering with Cum Laude, 2013

Bucknell Engineering Network Student Liaison

Chair of the Banquet & Society Activities Committee of Tau Beta Pi
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Mathias Müller | 19 Nov 11:36 2014
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PNG Export-Issue


Hi Yeti,

the current stable version of Gwyddion (Linux, V2.39, R2014-11-14) seems to have problems to maintain the
color scale when exporting
processed data to png. However, while writing this mail it seems this problem is persistent for other
formats, too.
The displayed and the written color scale in the export dialog differs from that of the channel I am working
on. It seems that the 
export dialog sets the full data range for color specification per default.

Can you reproduce this issue on your machine?

Cheers,

/M

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Gmane