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109be49f31
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Merge branch 'feature/DB_for_FileReader_Repo' into 'main'
Restructuring of file reader system to process multi-instrument data folders.
See merge request 5505-public/dima!3
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2025-02-25 10:48:59 +01:00 |
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14b738818c
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Merge branch 'main' into 'feature/DB_for_FileReader_Repo'
# Conflicts:
# instruments/filereader_registry.py
# pipelines/data_integration.py
# src/hdf5_writer.py
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2025-02-25 10:41:02 +01:00 |
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4f438f86fe
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Update import statements in pipelines/data_integration.py. from instruments.readers import ... -> from instruments import ...
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2025-02-25 09:21:52 +01:00 |
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68344964ac
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Implemented create_hdf5_from_filesystem_new() using new instrument readers cml interface and subprocesses. This facilitates extension of file reading capabilities by collaborators without requiring changes to file_registry.py. Only additions in folders and registry.yaml.
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2025-02-24 18:48:03 +01:00 |
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e5fdc6fa31
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Update all file readers with command line interface so we can run them as a subprocess. Added also registry.yaml to decouple code from user-based instrument adaptations or extensions.
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2025-02-24 17:27:12 +01:00 |
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2cdd6925af
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Merge branch 'main' of https://gitlab.psi.ch/5505-public/dima
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2025-02-22 18:02:45 +01:00 |
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bc1d65d469
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Fix import for filereader_registry.py after moving it from intruments/readers/ one level above.
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2025-02-22 17:59:00 +01:00 |
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85d4e39299
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Moved filereader_registry.py outside readers folder.
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2025-02-22 17:53:19 +01:00 |
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02e926e003
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Moved filereader_registry.py outside readers folder.
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2025-02-22 17:51:56 +01:00 |
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81be6b54c8
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Change import statements with try except to enable explicit import of submodules from import to avoid conflicts with parent project.
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2025-02-22 17:10:53 +01:00 |
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df0aca97df
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Implement data_lineage_metadata.json detection and then use it to annotate associated file.
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2025-02-10 15:56:34 +01:00 |
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b8900cab67
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Enable boolean type columns from pandas DataFrame to be suitably converted into numpy structured array
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2025-02-10 15:52:17 +01:00 |
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7906387271
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Make file reader selection case insensitive by using ext.lower() and update config_text_reader.py to point to renamed dictionary.
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2025-02-08 19:45:16 +01:00 |
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cbf468f5ac
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remove instruments/dictionaries/ICAD_NO2.yaml. Its dict terms are now in ICAD.yaml.
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2025-02-08 19:23:37 +01:00 |
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131704dcf2
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Add dict terms from ICAD_NO2.yaml
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2025-02-08 19:22:27 +01:00 |
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33aabf45fa
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Combine dictionaries of ICAD_HONO.yaml and ICAD_NO2.yaml into ICAD.yaml
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2025-02-08 19:21:17 +01:00 |
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3e6f6bc46e
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Remove skip directory condition when directory keywords are empty. Here, all paths to files should be considered.
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2025-02-07 16:37:01 +01:00 |
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1a843ee2c6
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Fix reader txt/csv default behavior.
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2025-02-07 16:25:45 +01:00 |
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46ca26a983
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Enable instrumentFolder of form <instFolder>/<category>/ to be trasfered without flatenning
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2025-02-07 16:24:21 +01:00 |
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36780d1a63
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Add try except block to trigger errors for invalid group names.
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2025-02-06 16:07:45 +01:00 |
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5943c60216
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Add constraint to match only path/to/keyword1/keyword2/files containing a composite keyword keyword1/keyword2.
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2025-02-06 15:34:38 +01:00 |
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58386ca10b
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Add property to extracted dataset as dataframe. Now time column is of datetime type to facilitate downstream procesing.
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2025-02-04 17:23:32 +01:00 |
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d89aebd861
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Implement method in hdf5 manager to infer datetime column in dataset
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2025-02-04 17:13:01 +01:00 |
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e358d4ab64
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Synch with remote repo
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2025-02-03 10:31:48 +01:00 |
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5e3f75d66b
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Fix typo in html text.
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2025-01-27 13:53:59 +01:00 |
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a3a1b8506c
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Update readme.md and set_up_env.sh
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2025-01-27 13:29:29 +01:00 |
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1b2184d8e1
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Update unload operation to remove reference and fix logic error to dataset metadata extraction.
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2025-01-24 10:28:43 +01:00 |
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7ffcd90e7b
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Add validation step to yaml file validation to ensure list type and a minimun length for the 'instrument_datafolder' keyword.
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2025-01-22 15:55:21 +01:00 |
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d59e9d2c0b
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Fix typo on extension items, extensions need to include a dot .json and .yaml.
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2025-01-21 09:30:49 +01:00 |
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f07dfc0a81
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Add json and yaml extensions to admissible file extension lists.
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2025-01-21 08:57:38 +01:00 |
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de9c45c21f
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Updated to cleared jupyter notebooks
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2025-01-14 14:46:43 +01:00 |
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ba49b168c4
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Added comments to explain configuration parameters/or variables.
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2025-01-14 14:25:53 +01:00 |
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df4bd2b3ae
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Add directory tree structure description.
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2024-12-04 17:20:35 +01:00 |
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368e4ce6d8
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Update .gitignore with output_files/
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2024-12-04 16:53:57 +01:00 |
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4d87169732
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Add .gitkeep and keep this folder empty. it is only to be used for local processing
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2024-12-04 16:52:50 +01:00 |
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32c1bd0731
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Update readme with getting started section
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2024-12-04 16:24:14 +01:00 |
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b13b4a4b57
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Solved binary incompatibility issue of generated environment by conda installing h5py and numpy from conda-forge or default channels.
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2024-12-04 16:15:42 +01:00 |
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5fa28ca917
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Updated bash script and yml env file to set up python interpreter.
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2024-12-04 13:52:35 +01:00 |
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d787ce6972
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Update to readme.md
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2024-12-03 13:55:45 +01:00 |
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941bf0e784
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Update readme with key features of the repo.
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2024-12-03 13:50:53 +01:00 |
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68cf2f8d3e
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Updated README.md with software arquitecture figure
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2024-12-02 17:28:22 +01:00 |
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99cc6faf11
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Updated README.md with software arquitecture figure
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2024-12-02 17:24:48 +01:00 |
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39eec2679e
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Updated README
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2024-12-02 17:22:52 +01:00 |
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6319c36cfb
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Updated figure name.
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2024-12-02 17:08:36 +01:00 |
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c97ff1208e
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Updated ci runner pipeline fot gitlab page
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2024-12-02 16:31:49 +01:00 |
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6899894ba1
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Updated documentation and built doc website
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2024-12-02 16:31:03 +01:00 |
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fc139e0ae5
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Relocated to visualization module
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2024-12-02 15:39:41 +01:00 |
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ef8cf9bb4e
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Add __init__.py
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2024-12-02 15:36:03 +01:00 |
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d79877cc9b
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Moved hdf5_lib.py to visualization folder
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2024-12-02 15:34:44 +01:00 |
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fa9edcb115
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Removed no longer useful notebook
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2024-12-02 15:32:57 +01:00 |
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