Plug the EPIC scraper to a parser

Questions:

[x] Messages.txt: which ID should be logged when a Growth Chamber is loaded.
- Currently there is the growth run ID. 16/06/2023 16:13:06.903,Location Tab,M8abcd moved from MC_manip to GC,-16777216. 'M8abcd' will be instead: growth_id@holder_id e.g., growth_id="M84123", holder_id="H4_10".
[x] "MBE sources" sheet in xlsx file: can we delete the EPIC loop column as we now have columns for the logged parameters directly?
- EpicLoopHL column can be deleted but the bare EPIC loop is still useful for the flux calibration "Fitting.txt" file, now added in the raw files folder.
[ ] fill impinging flux in Source. Check the formula:
- 'EPIC Fitting Config File Fit=AEF ' activation energy fit: BEP=A*exp(T0/T_cell[K]) BEP typically 1e-7mbar; FLUX typically 0.01--1 nm^-2s^-1 Order=1 ' ignored for aef BEPtoFlux=4926000 ' mbar into nm^-2s^-1: FLUX=BEPtoFlux x BEP Coeff=4.614E00,-2.313E04 ' A, T0 (from the Fitting.txt file)
[ ] "MBE sources" : do we need an ID for each source?
- No ID for sources. The gas mixing of PLASMA source will be taken given that the growth time interval falls in the timestamp of the gas mixing lines
[ ] "MBE gas mixing" how did we decide to organize this sheet? one MFC per line? how do we link more lines to the same plasma source?
- each line is one MFC measure. We link more lines to the same growth process through the datetime.
[ ] check that missing columns do not stop processing
[ ] upload xlsx in github
[ ] Units of the raw files ??
- new columns have been added to the xlsx file
[x] which excel sheets include in the settings xlsx that will be uploaded together to the raw txt files?
- all the excel sheets will be kept in each growth as it is not a heavy file. Checks in NOMAD will be made to see if an instrument with same ID already exist and if the archive is the very same or something changed.
[x] let's split the xlsx file. which sheets are process-specific, which one are more general?
- we don't split it anymore.
[ ] Substrate: SUB.MV SUB.WOP SUB.PID.I SUB.PID.V are now included in growth->sample_parameters. Is this the right place?
- it's okay. But do not parse for now SUB.PID.I SUB.PID.V
[x] Sub.PID.I and Sub.PID.V were not found in example folders
[ ] Shutters.txt should follow the EPIC loop naming to modulate the impinging flux
[ ] Pyro.PID.MV is inside in-situ reflectance
- it's okay. Plot the pyrometer_temperature into the growth_step.substrate_tempearture plot
[ ] where should we show in-situ reflectance section?
- make a dedicated issue to be tackled when the process is divided into steps
[ ] XML file for in-situ: will it be included in the same folder (PDIRS folder)? can we include it in the xlsx setting file?
- XML is not used, we have an excel sheet called LR config, create Laser Reflectance class. Parse LR.MV.txt file.
[x] Plasma source: fill in dissipated power as the difference between forward and reflected power
- leave out dissipated
[ ] In situ Emission or Pyrometry (change the current in situ reflectance name)
[x] Pyrometry settings (new excel sheet)
[ ] CLC (cold lip cells) which parameters do you record for this source?
- same as SFC. generate a new class and add source_type.
[ ] substrate holder is now in the "samples" section in the growth process archive
- fix empty sample holder reference in filled sample holder.
- insert_reduction should not always be in the position, only optionally
- fill the substarte with grown
[ ] check the source and port linking network
[x] change source_name in xlsx for plasma-type source (material cell is a dummy one)
[ ] check source_geometry and source length

PDI-Berlin / pdi-nomad-plugin

Plug the EPIC scraper to a parser #7