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path: root/wqflask/base/data_set.py
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2021-04-30autopep8: Fix E121,E122,E123,EI24,E125,E126,E127,E128,E129,E131,E133BonfaceKilz
2021-04-30autopep8: Fix W504BonfaceKilz
2021-04-30autopep8: Fix E501BonfaceKilz
2021-04-30autopep8: Fix E301,E302,E303,E304,E305,E306BonfaceKilz
2021-04-30autopep8: Fix E20-E27...Run: python -m autopep8 --in-place --recrusive ./ --select\ E20,E211,E22,E224,E224,E225,E226,E227,E228,E231,E241,\ E242,E251,E252,E26,E265,E266,E27 -p 3 BonfaceKilz
2021-04-29Run `sed -i 's/(object)//g'`...See: https://is.gd/pL7IJF Ran: find . \( -type d -name .git -prune \) -o -type f -print0 | xargs -0 sed -i 's/(object)//g' BonfaceKilz
2021-04-29base: data_set: Remove unused method...* wqflask/base/data_set.py (Dataset.get_accession_id): Delete it. BonfaceKilz
2021-04-29base: data_set: Apply pep-8BonfaceKilz
2021-04-29base: data_set: Remove unused method...* wqflask/base/data_set.py (riset): Delete class method. BonfaceKilz
2021-04-29base: data_set: Rewrite data_set using @dataclass...@dataclasses should be used to hold only data. Since dataset only encapsulates data, re-writing it using a dataclass makes it more readable and easier to follow. BonfaceKilz
2021-04-23Remove stale commentsBonfaceKilz
2021-02-11Removed some log statementszsloan
2020-10-12Merge branch 'testing' into build/python3-migrationBonfaceKilz
2020-10-08Fixed remaining issue that applies to all dataset types...* wqflask/base/data_set.py - Fixed issue where there was an error when trying to take the len of the query results when there were no results zsloan
2020-10-08Fixed issue where new phenotype groups wouldn't be saved to the self.datasets......* wqflask/base/data_set.py - Set "group_name" as a separate variable from "name" to avoid it being used as the key in self.datasets zsloan
2020-09-30Removed unused code from TempDataSet class...* wqflask/base/data_set.py - TempDataSet class contained some code referring to the SQL DB, but temp traits aren't stored in the SQL DB anymore zsloan
2020-08-28Merge branch 'testing' into build/python3-migrationBonfaceKilz
2020-08-27Remove redundant methods which are defined elsewhere...* wqflask/base/data_set.py: Delete "create_in_clause", and "mescape" which are defined in "utility.db_tools" BonfaceKilz
2020-08-27Replace "string.split" & "string.join" with python's inbuilt methodsBonfaceKilz
2020-08-26Remove "from __future__ import new_feature" statements...See: <https://docs.python.org/2/library/2to3.html#2to3fixer-future> BonfaceKilz
2020-08-26Rename "unicode" to "str"...See: <https://docs.python.org/2/library/2to3.html#2to3fixer-unicode> BonfaceKilz
2020-08-25Fixed issue in DatasetType that caused an error when trying to load new...datasets * wqflask/base/data_set.py - Added fetchone() to g.db.execute() which is what was causing the error zsloan
2020-08-20Handle module renames in the standard library...Run: ``` 2to3-3.8 -f imports -w . && \ 2to3-3.8 -f imports2 -w . ``` See: <https://docs.python.org/2/library/2to3.html#2to3fixer-imports> and <https://docs.python.org/2/library/2to3.html#2to3fixer-imports2> BonfaceKilz
2020-08-20Disable python2 QTLReaper...* wqflask/base/data_set.py: Remove usage of "reaper" to load datasets BonfaceKilz
2020-08-19Make Python more idiomatic...Run `2to3-3.8 -f idioms -w .` See: <https://docs.python.org/2/library/2to3.html#2to3fixer-idioms> BonfaceKilz
2020-08-19Replace `izip` with python's built-in equivalent...Run `2to3-3.8 -f itertools -w . && 2to3-3.8 -f itertools_imports -w .` See: <https://docs.python.org/2/library/2to3.html#2to3fixer-itertools_imports> and <https://docs.python.org/2/library/2to3.html#2to3fixer-itertools> BonfaceKilz
2020-07-27Abstract away redundant code into set_dataset_key method...* wqflask/base/data_set.py (Dataset): - Add set_dataset_key - Remove __call__ method BonfaceKilz
2020-07-27Use the correct redis instance inside object...* wqflask/base/data_set.py (DatasetType): Use object's redis instance BonfaceKilz
2020-07-24Merge pull request #409 from BonfaceKilz/Build/add-tests...Build/add testszsloan
2020-07-24Fixed queries that were wrongly returning Data IDs as Nszsloan
2020-07-24Inject redis instance into DatasetType class...* wqflask/base/data_set.py(DatasetType): - Rename Redis instance to r to avoid confusion and name collisions - Inject the redis instance into Dataset_Types class to make it easier to test - Rename Dataset_Types class to DatasetType class BonfaceKilz
2020-07-24Apply autopep-8...* wqflask/base/data_set.py: Apply autopep-8 BonfaceKilz
2020-07-24Remove unused importBonfaceKilz
2020-06-22Fixed issue with temp traits not working for trait page functions like correl...zsloan
2020-06-17Adding all the authentication stuffzsloan
2020-05-07Fixed blatseq issue and geno correlation issueblatseq_fixzsloan
2020-05-07Committing current progress on group manager + a minor fix in dataset.pyzsloan
2020-04-27Added timeout for when/if it does the REST API query, so it doesn't hang inde...zsloan
2020-04-27Made change that should allow dataset structure to be loaded from Redis inste...zsloan
2020-04-26Removed the code that was still writing the database menu JSONzsloan
2020-04-24Replaced hard-coded instances of GN2 urls with ones pulled from settings filezsloan
2020-04-24Made a fix that should prevent the issue where new datasets cause an error wh...zsloan
2020-04-06Added Mean column for phenotype traits in search and global search result tableszsloan
2020-03-27Fixed issue where GEMMA wasn't showing up for certain groupszsloan
2020-03-27Added integration for using RData files with R/qtl, plus some other changes t...zsloan
2020-02-07Users can now add and do mapping on genotype files that only include a subset......Also filtered the results used by Christian's genome browser, so now it should have an easier time loading when dealing with larger numbers of markers zsloan
2019-12-04Added M to the possible non-number 'chromosome' nameszsloan
2019-11-21Added 3-letter codes to unpublished phenotype traits and fixed issue with ord...zsloan
2019-11-14Changed code to rebuild dataset list each time you view the trait page to avo......Fixed logic for UniProt link to use UniProtId instead of protein ID zsloan
2019-11-05Fixed issue with ordering items in correlation dataset select dropdownzsloan
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