e1d5dfa487
example env now contains approved operative unit code for CNR-SPIN@Na
2026-05-14 17:09:35 +02:00
45220bbaf3
docs finished up to usage, ignores drawio bkp
2026-05-14 17:08:56 +02:00
dc916b1207
new docs, up to installation procedure
2026-05-14 01:40:54 +02:00
50a1ba9f22
first docfiles (asciidoc) - not completed
...
not even the introduction is full
2026-05-13 21:01:05 +02:00
8962135f0e
adds example .env file
2026-05-13 12:38:00 +02:00
ee96100a73
uses dotenv to store api key and other important variables
...
if a value is not found in .env it will be prompted, but not checked
next step is user docs
2026-05-13 12:31:26 +02:00
686f869d10
documents all the functions/classes/methods (by hand)
...
no AI used, it took more than I'm willing to admit but it's done
2026-05-13 12:12:32 +02:00
2eea3fc2dd
ignores output/attachments
2026-05-13 10:27:40 +02:00
cbf5cdd115
clears comments
2026-05-13 10:26:15 +02:00
a6d4c72f9c
adds dependency: dotenv
2026-05-13 09:53:57 +02:00
7e808509cc
THIS should solve the naming problem
...
new class for the Proposals, only outputs their names
if name contains "Proposal ", that gets cropped out
if no proposal is specified the name of the sample shall not include one
2026-05-12 22:59:19 +02:00
2bbab96ca7
rm unnecessary fstring
2026-05-12 16:48:04 +02:00
f84478a7a4
this should solve the filename problem
2026-05-12 16:08:49 +02:00
19a802694f
MAJOR: fundamental functions of the parser are ready and tested!
...
TO-DO:
1. follow the "TO-DO" comments to clean the code
2. filename should be NFFA-DI compliant like:
nffa-di_NA01_Napoli_Na-26-015.h5
3. rheed data analysis should take two distinct functions
one for the raw stream and one for the image
4. if time allows: consider moving most of main.py in separate modules
2026-05-12 15:38:06 +02:00
df927b7c0e
Layer class methods to list attachments up and tested
2026-05-12 13:51:59 +02:00
ccf74fca26
methods to download experiments attachments up and tested
...
to-do: clean code
2026-05-12 13:36:52 +02:00
07aac3e6b3
unfinished work
2026-05-12 12:54:16 +02:00
c5b17bb3f8
minimal modifications
2026-05-09 00:15:52 +02:00
865f5cab6b
untested: adds methods to Layer class to fetch attachments list
...
one method fetches all
one filters textual uploads
one filters png and bmp images
2026-05-08 23:40:14 +02:00
0102bb282e
improves documentation, tabbing and error handling in APIHandler class
...
Claude Code helped with autocompletion, the rest is my work
2026-05-08 23:31:36 +02:00
1ef944288e
creates APIHandler methods for downloading attachments
...
method 'download_attachments_data" works with elabapi.UploadsApi() class
to download binary data and other metadata of our files.
CURRENTLY it downloads every single attachment which is not intended
and it's only for testing purposes
"download_attachments_to_disk" saves binary data to "output/attachments"
2026-05-08 18:11:53 +02:00
8e7a424320
adds new bmp RHEED picture for testing
2026-05-08 18:10:15 +02:00
008bcff826
LazyVim tab fix + new unused Layer-class methods to fetch uploads
2026-05-08 18:09:03 +02:00
51b8ea7dd7
adds elabapi_python to requirements
2026-05-08 17:52:32 +02:00
8c616dee2c
adds a randomly generated RWA
...
RWA_Noise has 4 columns: time and 3 intensities.
the RWA is generated through python-random starting from the original
RWA, so that every value is its corresponent in the original file times
a random float number bw/ .8 and 1.2 (noise)
2026-05-08 15:27:45 +02:00
bb1ea8f1c3
proposed: schemas are placed in src/schema (module)
...
separating schemas from main.py might be a good idea since the parser
will support more fabrication methods, but since every method has its
dictionary is it even possible?
2026-05-08 11:20:10 +02:00
207de511fa
transposes rheed intensities, adds shebang to main.py
2026-05-08 10:05:47 +02:00
aa5c114b3b
matrix no more normalized
2026-05-05 12:15:57 +02:00
b26433d7ec
test image
2026-05-05 12:15:45 +02:00
7a871a9f6d
adds useless attrs suggested by DeepSeek
...
leaving this here as a memento that LLM's allucinate
2026-05-05 12:11:27 +02:00
a278119be4
diffraction image successfully loaded in nexus file
2026-05-05 12:02:39 +02:00
707ce28156
lazy vim auto clean + starting point for image analysis
2026-05-05 11:40:57 +02:00
173ae24aa8
adds pillow (PIL) to requirements for image processing
2026-04-27 15:23:18 +02:00
1d8fd5af15
handles absence of laser energy value
2026-04-27 15:09:52 +02:00
038f1920ba
error message includes missing item case
2026-04-24 10:37:10 +02:00
1523c973f4
another attempt at parsing RWA - seems to work better
2026-03-20 15:02:12 +01:00
5cf67648af
adds mod. suggested by ClaudeAI - still doesn't work
...
original code is commented below, rows 517-545
2026-03-18 15:15:31 +01:00
839799a13f
adds new function to analyze rheed data, doesn't really work atm
...
thanks DeepSeek
2026-03-16 12:51:05 +01:00
10c68bf260
reworks how instruments are recorded in the nx file according to new ver
...
the instruments_used group is still present outside the multilayer group
but currently a new instruments_used sub-group is created in the
layer-specific group
instruments used to deposit a single layer are in
/sample/multilayer/layer_N/instruments_used and there's only one value
for each category (rheed, laser, chamber)
in /instruments_used (root) for each category there's a list of every
(unique) instrument involved in the full deposition process
2026-03-13 15:11:53 +01:00
bab5e958cb
NOT WORKING: starts changing the structure of function "deduplicate..."
2026-03-11 15:43:11 +01:00
fc150be724
main now turns content of realtime window analysis into nx dataset
...
the data is not parsed or analysed, it's written as text (well, tsv
technically) - this is only for testing and first attempts
2026-03-11 15:01:04 +01:00
aa3bf531f9
adds example realtime windows analysis
2026-03-11 15:00:15 +01:00
3f97ccee25
removes functions.py
2026-02-17 16:20:08 +01:00
3ae6b86b8e
more elegant solution for deduplicating instruments
...
also edits help for deduplicate_instruments... to better explain what it
does; also fixes small typo ('default=' instead of 'default ='), row 448
2026-02-17 16:15:17 +01:00
d83873c763
raises IndexError if no laser, rheed sys. or chamber is ever specified
...
i.e. if one or more of these fields aren't specified thru all layers
2026-02-17 14:54:33 +01:00
de401b5474
adds instruments metadata to h5 file
2026-02-17 14:39:04 +01:00
fde2615107
changes method of instrument list deduplication
...
picks first occurrence in every set (ded_lasers, ded_chambers,
ded_rheeds) and eventually warns user if duplicates exist
2026-02-17 14:37:35 +01:00
59e173c54f
adds rastering and annealing metadata incl. UoM's
2026-02-16 19:40:23 +01:00
712cbc4788
cleans code
2026-02-16 19:40:09 +01:00
207d166227
adds most of the required metadata to function build_nexus_file
...
the file is generated into the "output" folder w/ .h5 extension
the most has been done already (probably)
2026-02-16 15:43:07 +01:00
