| Age | Commit message (Collapse) | Author | |
|---|---|---|---|
| 2021-07-10 | gn3: db: Add extra argument to specify column in fetch statements | BonfaceKilz | |
| 2021-07-10 | db: phenotypes: Add Probeset data structures | BonfaceKilz | |
| * gn3/db/phenotypes.py (Probeset): New dataclass. (probeset_mapping): New dict. * gn3/db/__init__.py: Add probeset_mapping and Probeset. | |||
| 2021-06-29 | Replace list with a tuple as an argument when setting success_codes | BonfaceKilz | |
| * gn3/commands.py (run_cmd): Replace type of success_codes from List to Tuple * gn3/computations/diff.py (generate_diff): Pass success_codes as a Tuple when calling "run_cmd". | |||
| 2021-06-29 | gn3: diff: Set success_codes when running the diff tool | BonfaceKilz | |
| 2021-06-29 | gn3: commands: Add extra arg that sets the success codes to check | BonfaceKilz | |
| * gn3/commands.py (run_cmd): Some commands like "diff" return non-standard error codes. To make this fn more robust, add an extra optional argument that sets what successful codes to check. | |||
| 2021-06-29 | Add a diffing function | BonfaceKilz | |
| For now the diff function uses the Linux tool "diff" to generate the diff since it is efficient and straightforward. * gn3/computations/diff.py (generate_diff): New function. * tests/unit/computations/test_diff.py: Test cases for ☝🏾. | |||
| 2021-06-25 | Check for the correct result code | BonfaceKilz | |
| When programs terminate with an error, they usually return a -1! | |||
| 2021-06-23 | fix pylint issues | Alexander Kabui | |
| 2021-06-23 | minor fixes for biweight script | Alexander Kabui | |
| 2021-06-20 | minor fix docstring | Alexander Kabui | |
| 2021-06-20 | merge main | Alexander Kabui | |
| 2021-06-20 | make requested changes to biweight | Alexander Kabui | |
| 2021-06-18 | Fixed pylint issues | zsloan | |
| 2021-06-18 | Resolve mypy errors in computations/rqtl.py | zsloan | |
| 2021-06-18 | Fixed spelling of coeffient to coefficient | zsloan | |
| 2021-06-18 | Rename json_data column to json_diff_data | BonfaceKilz | |
| 2021-06-18 | gn3: db: Fix how columns from tables is resolved | BonfaceKilz | |
| 2021-06-18 | gn3: db: Add "id_" property to metadata_audit class and mapping | BonfaceKilz | |
| 2021-06-18 | gn3: db: Add "fetchall" method. | BonfaceKilz | |
| 2021-06-18 | gn3: metadata_audit: Make props for MetadataAudit class optional | BonfaceKilz | |
| 2021-06-18 | gn3: db: Make "WHERE" clause optional | BonfaceKilz | |
| * gn3/db/__init__.py (fetchone): Make "WHERE" an Optional arg. | |||
| 2021-06-18 | gn3: db: Use correct DATACLASSMAP entry from metadata_audit | BonfaceKilz | |
| 2021-06-18 | gn3: db: sort imports | BonfaceKilz | |
| 2021-06-18 | gn3: db: Remove "escape_string" from imports | BonfaceKilz | |
| We use prepared statements, so no need to have this. | |||
| 2021-06-18 | Use prepared statements for FETCH sql function | BonfaceKilz | |
| 2021-06-18 | gn3: db: Replace items() with keys() | BonfaceKilz | |
| * gn3/db/__init__.py (diff_from_dict): We only use the keys of the dict! | |||
| 2021-06-18 | Use prepared statements for UPDATE sql function | BonfaceKilz | |
| 2021-06-18 | gn3: db: Add new function for doing sql INSERT | BonfaceKilz | |
| 2021-06-18 | Add data structures for the table metadata_audit | BonfaceKilz | |
| 2021-06-18 | gn3: db: Add spacing before around "AND" in sql clause | BonfaceKilz | |
| 2021-06-18 | Get the diff between 2 dicts and return that as a dict | BonfaceKilz | |
| 2021-06-18 | gn3: db: Return None if data and where are empty | BonfaceKilz | |
| 2021-06-18 | fix index error (#16) | Alexander Kabui | |
| 2021-06-18 | Move the methods, "update" and "fetch", to gn3.db | BonfaceKilz | |
| 2021-06-18 | db: phenotypes: Fix publication_mapping | BonfaceKilz | |
| 2021-06-18 | db: phenotypes: Fix typo | BonfaceKilz | |
| 2021-06-18 | db: phenotypes: Add function for fetching a single result | BonfaceKilz | |
| * gn3/db/phenotypes.py (fetchone): New function. | |||
| 2021-06-18 | db: phenotypes: Add a dataclass map | BonfaceKilz | |
| Maps a string to it's dataclass. | |||
| 2021-06-18 | db: phenotypes: Add Publication table mapping | BonfaceKilz | |
| 2021-06-18 | db: phenotypes: Rename phenotype_column_mapping | BonfaceKilz | |
| 2021-06-18 | db: phenotypes: Add Publication dataclass and mapping | BonfaceKilz | |
| 2021-06-18 | db: phenotypes: Generalise the update function | BonfaceKilz | |
| * gn3/db/phenotypes.py (update_phenotype): Delete it. (update): New, more general function. | |||
| 2021-06-18 | db: phenotypes: Map a table to it's relevant dict mapping | BonfaceKilz | |
| 2021-06-18 | db: phenotypes: Add type for Dataclass | BonfaceKilz | |
| See: https://www.py4u.net/discuss/188952 | |||
| 2021-06-18 | db: phenotypes: Put mapping def after dataclass | BonfaceKilz | |
| 2021-06-18 | db: phenotypes: Add phenotype table mapping | BonfaceKilz | |
| 2021-06-18 | db: phenotypes: Add dataclass to represent PublishXRef | BonfaceKilz | |
| 2021-06-18 | db: phenotype: Make "pylint: disable=[R0902]" global for file | BonfaceKilz | |
| 2021-06-18 | db: phenotypes: Add a way of updating the Phenotype table | BonfaceKilz | |
| * gn3/db/phenotypes.py (Phenotype): New dataclass. (update_phenotype): New function. [phenotype_column_mapping]: New variable. | |||
| 2021-06-18 | Fixed issue where all bool kwargs were always being passed to ↵ | zsloan | |
| generate_rqtl_cmd and also made code check if output file already exists (so caching works) | |||
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index : genenetwork3 | |
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