genenetwork2 - GeneNetwork (2nd generation)

Age	Commit message (Collapse)	Author
2024-10-29	Use argparse.ArgumentParser to collect CLI args from user	Frederick Muriuki Muriithi
	Collect arguments from the CLI using argparse rather than sys.argv directly.
2024-10-29	Change indentation, wrap code in function and create entry-point.	Frederick Muriuki Muriithi

2023-03-08	Add DataAnalyzer.py script to maintenance scripts	zsloan

2022-06-03	Give speciesid single quotes like the other config_dic keys, just for ↵	zsloan
	consistency
2022-06-03	Allow GenoFreezeId to be passed in configurations to load_genotypes.py	zsloan

2022-03-10	Use context manager with database connection	Frederick Muriuki Muriithi
	Use the `with` context manager with database connections and cursors to ensure that they are closed once they are no longer needed. Where it was not feasible to use the `with` context manager without a huge refactor/rewrite, the cursors and connections are closed manually.
2021-05-13	Fix load_phenotypes to run with GN2 latest	Arthur Centeno

2020-10-29	Replace map on strip with a list comprehension that calls strip()	BonfaceKilz
	* scripts/maintenance/readProbeSetSE_v7.py: In Python3 you can't map string.strip on a list of strings. Instead use a list comprehension and apply strip() on each element of the list. * wqflask/wqflask/marker_regression/plink_mapping.py: Ditto. * wqflask/wqflask/snp_browser/snp_browser.py: Ditto.
2020-08-27	Replace "string.split" & "string.join" with python's inbuilt methods	BonfaceKilz

2020-08-26	Replace tabs with spaces	BonfaceKilz
	* scripts/maintenance/readProbeSetMean_v7.py: Run python-autopep8 on this file.
2020-08-19	Remove extra whitespace(or add it) from comma separated items	BonfaceKilz
	See: <https://docs.python.org/2/library/2to3.html#2to3fixer-urllib>
2020-08-19	Make Python more idiomatic	BonfaceKilz
	Run `2to3-3.8 -f idioms -w .` See: <https://docs.python.org/2/library/2to3.html#2to3fixer-idioms>
2020-08-19	Convert `raw_input` to `input`	BonfaceKilz
	Run `2to3-3.8 -f raw_input -w .` See: <https://docs.python.org/2/library/2to3.html#2to3fixer-raw_input>
2020-08-19	Convert the use of iterator’s next() methods to the next() function	BonfaceKilz
	Run `2to3-3.8 -f next -w .` See: <https://docs.python.org/2/library/2to3.html#2to3fixer-next>
2020-08-19	Change `dict.has_key(key)` to `key in dict`	BonfaceKilz
	Run `2to3-3.8 -f has_key -w .` See: <https://docs.python.org/2/library/2to3.html#2to3fixer-has_key>
2020-08-19	Fix dictionary iteration methods	BonfaceKilz
	Run `2to3-3.8 -f dict -w .` See: <https://docs.python.org/2/library/2to3.html#2to3fixer-dict> and <https://stackoverflow.com/questions/17695456/why-does-python-3-need-dict-items-to-be-wrapped-with-list>
2020-08-19	Wrap `map()` in a `list` call	BonfaceKilz
	Run `2to3-3.8 -f map -w .` See: <https://docs.python.org/2/library/2to3.html#2to3fixer-map>
2020-08-18	Replace "raw_input" with "input"	BonfaceKilz
	* scripts/maintenance/readProbeSetMean_v7.py: Use "input". See https://docs.python.org/3/whatsnew/3.0.html#builtins
2020-08-18	Wrap print statements in parentheses	BonfaceKilz

2020-08-18	Replace DOS style line endings with UNIX style ones	BonfaceKilz
	* scripts/maintenance/readProbeSetSE_v7.py: Run dos2unix against file
2020-08-18	Apply pep8	BonfaceKilz
	* scripts/maintenance/readProbeSetSE_v7.py: Apply pep8 to file to replace tabs with spaces and use correct indentation.
2018-04-03	@acenteno added data upload scripts into main repo	Pjotr Prins