FAIRmat-NFDI / pynxtools / 5143156493

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Apm em sprint14 p2 (#117)

* Initial commit new em_nion swift project reader

* Added code for parsing nsproj, ndata, and h5 file metadata from nszip, inspect get_display_items_from_nszip.ipynb in em_nion/development for the next steps

* Added remaining examples from Benedikts Nion session and image concept dict

* Added code for analyzing which metadata come with specific different types of display_items from swift and added code for classifying cases on unique NeXus concepts and recovery of dimension scale axes, next steps: i) create mapping table, ii) modify nx classes

* Added close to jsonmap_reader mapping table exemplarily for concept NxImageRealSpace, next step i) complete this, ii) carry the code over to reader.py

* Time zone converting from swift local time to utc and NxImageReaslSpace mapping table and code for interpreting modifiers working, next step, carry over to reader code to get a first nxs example with instances of NxImageRealSpace as event_data_em

* Parser skeleton carried over from ipynb to reader.py tested working, i.e. reads zip file in place and reads from these the individual ndata and hdf5 files in place, next step implement assigning into the template

* Support for NxImageRealSpace implemented, next steps i) parse eln_data.yaml to pass verification, ii) add default plots, iii) check if nd array correctly arranged

* Mapping table for concept eels

* Added generic ELN loading

* CI fixes, intentional downgrading of tzlocal to 4.3 as nionswift is not explicit constraining this enough but using the default tzlocal today (5.0) in combination with py3.10 yields problems as tzlocal>4.3 and backport.zoneinfo is not supported any longer, seems that swift developers should use newer zoneinfo syntax

* Generated dev-requirements within py310 to check if one can avoid the issue that backports.zoneinfo does not compile with 3.10

* Fixed buges with 3d axes, fixed default plotting, and instance indexing, added... (continued)

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