| Age | Commit message (Collapse) | Author | |
|---|---|---|---|
| 2021-03-08 | Add "/k-gwa-compute/covars/loco/<chromosomes>/maf/<maf>/<token>" | BonfaceKilz | |
| Reviewed-by: BonfaceKilz <me@bonfacemunyoki.com> | |||
| 2021-03-08 | Add "/gemma/k-gwa-compute/loco/<chromosomes>/maf/<maf>/<token>" | BonfaceKilz | |
| 2021-03-08 | Add "/k-gwa-compute/covars/<token>" | BonfaceKilz | |
| 2021-03-08 | Add "/gemma/k-gwa-compute/<token>" | BonfaceKilz | |
| 2021-03-08 | Replace "compute_k_values" with "generate_gemma_cmd" | BonfaceKilz | |
| 2021-03-08 | Use new "compute_k_values" procedure | BonfaceKilz | |
| 2021-03-08 | Add generic fn for computing k and gwa values | BonfaceKilz | |
| 2021-03-08 | Apply pep-8 formatting | BonfaceKilz | |
| Began using elpy's format code fn | |||
| 2021-03-08 | Add new endpoint | BonfaceKilz | |
| "/gwa-compute/<k_filename>/loco/covariates/maf/<maf>/<token>" | |||
| 2021-03-08 | Replace "generate_gemma_computation_cmd" with "compose_gemma_cmd" | BonfaceKilz | |
| 2021-03-08 | bug: Put a space between gemma-wrapper args | BonfaceKilz | |
| 2021-03-08 | Add new endpoint: "/gwa-compute/<k_filename>/loco/maf/<maf>/<token>" | BonfaceKilz | |
| 2021-03-08 | Add new endpoint: "/gwa-compute/covars/<k_filename>/<token>" | BonfaceKilz | |
| 2021-03-08 | Add new endpoint: "/gwa-compute/<k_filename>/<token>" | BonfaceKilz | |
| 2021-03-08 | Add new endpoint: "/gemma/k-compute/loco/<chromosomes>/<token>" | BonfaceKilz | |
| 2021-03-08 | Prepend all endpoints with "api" | BonfaceKilz | |
| 2021-03-08 | Add new endpoint: "/gemma/k-compute/<token>" | BonfaceKilz | |
| * gn3/api/gemma.py (compute_k): New function. * tests/integration/test_gemma.py (tesk_k_compute): New test case. | |||
| 2021-03-08 | Create a more generic procedure for getting hash values of files | BonfaceKilz | |
| * gn3/file_utils.py (get_hash_of_values): New procedure. (get_dir_hash): Use more generic "get_hash_of_values" to compute the hash of a directory. | |||
| 2021-03-08 | Replace APP_DEFAULTS dict with actual conf params | BonfaceKilz | |
| 2021-03-08 | Delete "lookup_file" procedure | BonfaceKilz | |
| 2021-03-08 | Use new extract_uploaded_file fn when uploading metadata | BonfaceKilz | |
| * gn3/api/general.py (upload_metadata): Update docstrings and update the use of "extract_uploaded_file" fn. | |||
| 2021-03-08 | Extract files to "/TMPDIR/TOKEN" | BonfaceKilz | |
| TOKEN is the user token * gn3/file_utils.py (extract_uploaded_file): Add extra param "token". If a token is empty, create a new directory based off that token. * tests/unit/test_file_utils.py: Update failing tests. | |||
| 2021-03-08 | Move "generate_random_n_string" to file_utils | BonfaceKilz | |
| * gn3/computations/gemma.py (generaten_random_n_string): Move to... * gn3/file_utils.py: ... here. | |||
| 2021-03-08 | Fix failing tests | BonfaceKilz | |
| 2021-03-08 | gn3: commands: Update docstring | BonfaceKilz | |
| 2021-03-08 | Add extra endpoint for checking the status of a command | BonfaceKilz | |
| 2021-03-08 | Make the name of the redis job queue configurable | BonfaceKilz | |
| 2021-02-24 | Rename "/gemma/run" to "/gemma/k-gwa-computation" | BonfaceKilz | |
| 2021-02-24 | Update how gemma(extracted from gn2) is computed | BonfaceKilz | |
| 2021-02-24 | Create a new helper function for generating k_values and GWA | BonfaceKilz | |
| 2021-02-24 | Add procedure that checks whether a list of paths exist | BonfaceKilz | |
| 2021-02-24 | Check if phenotype exists before creating one | BonfaceKilz | |
| 2021-02-24 | Add new procedure that computes the hash of an array of strings | BonfaceKilz | |
| 2021-02-24 | Add mypy-typing to function | BonfaceKilz | |
| * gn3/computations/gemma.py (generate_random_n_string): Add typing to function. | |||
| 2021-02-24 | Append random 6 chars to generated phenotype file | BonfaceKilz | |
| 2021-02-24 | Create a new method for generating a valid phenotype file on the fly | BonfaceKilz | |
| 2021-02-24 | Add GENODIR extra param | BonfaceKilz | |
| 2021-02-24 | Add endpoint for running GEMMA | BonfaceKilz | |
| 2021-02-24 | Delete unnececessary gemma endpoints | BonfaceKilz | |
| 2021-02-24 | Remove test "/gemma" stub | BonfaceKilz | |
| 2021-02-24 | gn3: api: gemma: Add endpoint for checking gemma-wrapper version | BonfaceKilz | |
| 2021-02-24 | gn3: commands: Remove token and metadata_filename args | BonfaceKilz | |
| 2021-02-24 | Add stubbed gemma endpoints | BonfaceKilz | |
| 2021-02-16 | Return the correct message and status code in "/metadata/upload" | BonfaceKilz | |
| 2021-02-16 | Register "general" blueprint endpoints | BonfaceKilz | |
| 2021-02-16 | Add extra default config for bcrypt | BonfaceKilz | |
| 2021-02-16 | Add new endpoint for uploading data | BonfaceKilz | |
| 2021-02-16 | Add procedure for uploading gzipped file | BonfaceKilz | |
| * gn3/file_utils.py (extract_uploaded_file): New procedure. * tests/unit/test_file_utils.py: Test cases for ^^. * tests/unit/upload-data.tar.gz: New test data. | |||
| 2021-02-16 | Add extra option to set email when queueing CMD | BonfaceKilz | |
| The e-mail field will be used to send the results of the computation when it is completed. | |||
| 2021-02-16 | Add basic integration tests to test out the API | BonfaceKilz | |
 |
index : genenetwork3 | |
| GeneNetwork3 REST API for data science and machine learning |
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