[NeXus-committee] Fwd: Summary Hangout NeXus format for Pixelated STEM

[Dieter Weber]

Dear Pete,
dear Michael,
CC Tobias,

about a year ago we started a discussion about building NeXus
Application Definitions for pixelated STEM. Sadly, I didn't receive any
response from the mailing list for the message below.

Did it actually get sent or was it "eaten" by a spam filter? Are you and
the rest of the NeXus community still interested in the topic?

As far as I can remember, the main issue where we needed help was
expressing beam scanning correctly, which is of course an integral part
for scanning transmission electron microscopy (STEM).

In case the topic is still relevant for NeXus, what should we do to move
this project forward? Who else on NeXus side could be interested and
competent to help set up an Application Definition and extend NeXus
towards electron microscopy?

With many thanks in advance,
Dieter


-------- Forwarded Message --------
Subject: Summary Hangout NeXus format for Pixelated STEM
Date: Wed, 30 May 2018 13:12:11 +0200
From: Dieter Weber <d.weber at fz-juelich.de>
To: libertem at googlegroups.com <libertem at googlegroups.com>,
nexus at nexusformat.org

Dear all,

thank you for the productive call and your contributions! As agreed,
here's a short summary.

Participants: Magnus Nord (UAntwerpen), Michael Cao (Cornell), Pete
Jemian (APS), Vadim Migunov, Alex Clausen, Dieter Weber (FZ Jülich)

We developed a mockup NeXus tree with comments and TODO items in a
shared editor: https://hackmd.io/g6f77f2TRJm_cveiIgNFSQ?both

I've saved the current draft in the LiberTEM GitHub repository as well
for safekeeping:
https://github.com/LiberTEM/LiberTEM/blob/master/fileformat/draft%20NeXus%20tree.txt

Next steps:

* Please comment and modify the draft! You can just add comments and
make changes in the shared editor if you like, or send feedback on the
mailing list.
* Continue with Magnus' work to build readers and writers as soon as the
draft stabilizes
* Implement in relevant software for testing.

I'm very happy about our progress, thanks again to all contributors, and
I'm looking forward to continue on this path together!

Greetings,
Dieter

Appendix: Links from the Hangout chat

http://download.nexusformat.org/doc/html/classes/base_classes/NXsource.html#nxsource
http://download.nexusformat.org/doc/html/classes/applications/NXstxm.html#nxstxm
https://github.com/prjemian/spec2nexus/blob/master/src/spec2nexus/eznx.py#L182
http://download.nexusformat.org/doc/html/utilities.html?highlight=validation#validation
http://download.nexusformat.org/doc/html/classes/base_classes/NXpositioner.html#nxpositioner
http://download.nexusformat.org/doc/html/classes/base_classes/NXtransformations.html#nxtransformations
http://download.nexusformat.org/sphinx/classes/base_classes/NXpositioner.html
http://cansas-org.github.io/canSAS2012/examples.html#d-image
Contact at HDF Group regarding chunking: Elena Pourmal
<epourmal at hdfgroup.org>
http://download.nexusformat.org/doc/html/datarules.html?highlight=unidata#nexus-data-units
thumbnail images are a proposal in NeXus that looks like it is
converging to implementation:
https://github.com/nexusformat/definitions/issues/381
NeXus conference call (biweekly)
https://www.nexusformat.org/Teleconferences.html


--
Dr. Dieter WEBER

Peter Grünberg Institute, Microstructure Research (PGI-5)
Ernst Ruska-Centre for Microscopy and Spectroscopy with Electrons (ER-C)
Forschungszentrum Jülich
52425 Jülich, Germany

Email: d.weber at fz-juelich.de
Phone: +49 2461 61 85118


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