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Author	SHA1	Message	Date
Holger Frey	feea2a03ff	Merge pull request 'Added parser for assay results XML file' (#1) from xmlparsing into master ... Reviewed-on: #1	2 years ago
Holger Frey	8169daeb89	Added parser for the assay results xml file ... The `sensospot_parser.parse_folder()` function now tries to parse the xml file first and will fall back to parsing csv files if an error occurs	2 years ago
Holger Frey	0a1da70021	added more example data for comparing xml to csv parsing	2 years ago
Holger Frey	9de0a09557	added more example xml data for testing	2 years ago
Holger Frey	819358977e	fixed test data for upcoming module xml_parser	2 years ago
Holger Frey	dd476bb19a	added more calls to "clenup_data_columns()" to remove double index columns after merges	2 years ago
Holger Frey	8c591e9f3c	removed debug print statement	2 years ago
Holger Frey	988c7562d9	renamed some functions in "csv_parser" module to have more explicit names	2 years ago
Holger Frey	8644a25d78	moved _cleanup_data_columns() function to "columns" module ... by moving this function it can be easily reused in the upcoming "xml_parser" module	2 years ago
Holger Frey	99d0e0fa4e	renamed test cases and added a new one for xml parsing	2 years ago
Holger Frey	938b063069	removed the "recordtime" module ... The "recordtime" module uses the assay result xml file for retrieving the Analyses.Datetime value. This value is only available in the assay result xml. Since the "parse_csv" module will only be a backup if this xml file is not present, a separate parser for the Analysis.Datetime is not needed anymore	2 years ago
Holger Frey	873091504c	renamed the "parser" module to "csv_parser" ... The "csv_parser" module will be used as a backup if the analysis xml file is not present.	2 years ago
Holger Frey	1c259b49df	the `quiet` parameter is passed from the cli to the function	2 years ago
Holger Frey	791ad62398	cleaned up the cli interface ... I was annoyed by the cli interface quite some time. It should now adhere more to what is expected from a POSIX cli	2 years ago
Holger Frey	c1bba778b9	removed debugging output	2 years ago
Holger Frey	78c5db031a	Added image name and recording datetime to the results ... This two columns where added: - Analysis.Image - Analysis.Datetime When parsing a folder, the image names and (if available) the date and time of the recording is added to the resulting data frame. If the recording datetime is not available, the resulting column will contain NaN	2 years ago
Holger Frey	cc133f1873	added build instructions for documentation	2 years ago
Holger Frey	74920764e7	added mkdocs for documentation	2 years ago
Holger Frey	6c749e0843	finally separate flake8 config file removed	2 years ago
Holger Frey	efc1f2a043	removing .flake8 again for testing new precommit setup	2 years ago
Holger Frey	dd04b0ece6	python3 -m venv --prompt sensospot .venv ... .venv/bin/pip3 install --upgrade pip Requirement already satisfied: pip in ./.venv/lib/python3.10/site-packages (22.2.2) .venv/bin/pip3 install "flit>3.2" Requirement already satisfied: flit>3.2 in ./.venv/lib/python3.10/site-packages (3.7.1) Requirement already satisfied: docutils in ./.venv/lib/python3.10/site-packages (from flit>3.2) (0.19) Requirement already satisfied: requests in ./.venv/lib/python3.10/site-packages (from flit>3.2) (2.28.1) Requirement already satisfied: tomli-w in ./.venv/lib/python3.10/site-packages (from flit>3.2) (1.0.0) Requirement already satisfied: flit_core>=3.7.1 in ./.venv/lib/python3.10/site-packages (from flit>3.2) (3.7.1) Requirement already satisfied: tomli in ./.venv/lib/python3.10/site-packages (from flit>3.2) (2.0.1) Requirement already satisfied: idna<4,>=2.5 in ./.venv/lib/python3.10/site-packages (from requests->flit>3.2) (3.3) Requirement already satisfied: certifi>=2017.4.17 in ./.venv/lib/python3.10/site-packages (from requests->flit>3.2) (2022.6.15) Requirement already satisfied: charset-normalizer<3,>=2 in ./.venv/lib/python3.10/site-packages (from requests->flit>3.2) (2.1.1) Requirement already satisfied: urllib3<1.27,>=1.21.1 in ./.venv/lib/python3.10/site-packages (from requests->flit>3.2) (1.26.12) .venv/bin/flit install --pth-file [?1049h(B[?7h[?1049l [?1l>Requirement already satisfied: pandas>=1.0.0 in ./.venv/lib/python3.10/site-packages (from -r /var/folders/v5/ws7wg4wx6k76gx3t_ylh29lr0000gn/T/tmpk7adulvkrequirements.txt (line 1)) (1.4.3) Requirement already satisfied: defusedxml>=0.6.0 in ./.venv/lib/python3.10/site-packages (from -r /var/folders/v5/ws7wg4wx6k76gx3t_ylh29lr0000gn/T/tmpk7adulvkrequirements.txt (line 2)) (0.7.1) Requirement already satisfied: tables>=3.6.1 in ./.venv/lib/python3.10/site-packages (from -r /var/folders/v5/ws7wg4wx6k76gx3t_ylh29lr0000gn/T/tmpk7adulvkrequirements.txt (line 3)) (3.7.0) Requirement already satisfied: 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Holger Frey	da42f2358c	fixes for new findings of flake8	2 years ago
Holger Frey	4e1d92ca41	modernized project layout and infrastructure ... - bumped version to 0.8.0 - requires now at least Python 3.9 - tox tests run in Python verions 3.9 and 3.10 - moved package source to "src" directory	2 years ago
Holger Frey	614a031217	updated readme	3 years ago
Holger Frey	fde3513809	renamed package to 'sensospot_parser'	3 years ago
Holger Frey	4c69ef457b	added type hints and more docs to parser	3 years ago
Holger Frey	79f2f0e3b9	added more documentation	3 years ago
Holger Frey	81db693157	added typing information to module parameters	3 years ago
Holger Frey	64cee96485	simplified adding parsed parameters	3 years ago
Holger Frey	b86971cd5a	made the api import test nicer	3 years ago
Holger Frey	04b2c8b598	renamed test for package api	3 years ago
Holger Frey	38224770ad	renamed column constants	3 years ago
Holger Frey	1fa3c65d50	clarified column sets	3 years ago
Holger Frey	e165648123	added common index columns sets	3 years ago
Holger Frey	4fbb6410b3	cosmetic changes	3 years ago
Holger Frey	c7e8c3455a	parsing an empty folder without data raise a ValueError	3 years ago
Holger Frey	6804ae5cdd	simplified concatenating mulitple dataframes into one	3 years ago
Holger Frey	ad960108e1	fixed shell script name	3 years ago
Holger Frey	9801036911	clarification in readme	3 years ago
Holger Frey	6690b2fddc	added 'Analysis.Filename' to readme	3 years ago
Holger Frey	c03cff6ad4	added option to recurse one level down	3 years ago
Holger Frey	c1f1e2bb0e	added the possibility to redirect parsed data to stdout	3 years ago
Holger Frey	75ac4740a5	fixed sanity check	3 years ago
Holger Frey	e90d3367ea	removed unused column definitions	3 years ago
Holger Frey	2de4859ca8	removed typo	3 years ago
Holger Frey	0290c0a9ba	removed "utils" and "dynamic_range" ... this two modules should be added to a new project. This project should concentrate on on just parsing the data.	3 years ago
Holger Frey	994a06a8f3	added more tests for apply_map()	3 years ago
Holger Frey	df0bf78b29	added apply_map() api function to readme	3 years ago
Holger Frey	791bc51deb	linted	3 years ago
Holger Frey	9359cc00af	added api function apply_map ... this also lead to simplifications in _add_measurement_params and apply_exposure_map	3 years ago