aboutsummaryrefslogtreecommitdiff
AgeCommit message (Collapse)Author
2021-02-24Remove test "/gemma" stubBonfaceKilz
2021-02-24Add integration test for "/gemma/version" endpointBonfaceKilz
2021-02-24gn3: api: gemma: Add endpoint for checking gemma-wrapper versionBonfaceKilz
2021-02-24Update "compose_gemma_cmd" testsBonfaceKilz
2021-02-24gn3: commands: Remove token and metadata_filename argsBonfaceKilz
2021-02-24Add type checking to gh workflowsBonfaceKilz
2021-02-24Add stubbed gemma endpointsBonfaceKilz
2021-02-17Add gemma-wrapperBonfaceKilz
* guix.scm: New package propagated-input. * README.md: Mention that you require "guix-bioinformatics" package, because of the addition of "gemma-wrapper".
2021-02-16Add test cases for "/metadata/upload" endpointBonfaceKilz
2021-02-16Return the correct message and status code in "/metadata/upload"BonfaceKilz
2021-02-16Register "general" blueprint endpointsBonfaceKilz
2021-02-16Add extra default config for bcryptBonfaceKilz
2021-02-16Add new endpoint for uploading dataBonfaceKilz
2021-02-16Add procedure for uploading gzipped fileBonfaceKilz
* 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.
2021-02-16Add extra option to set email when queueing CMDBonfaceKilz
The e-mail field will be used to send the results of the computation when it is completed.
2021-02-16Add python-bcrypt as a dependencyBonfaceKilz
* guix.scm: Add python-bcrypt. * requirements.txt: Ditto.
2021-02-16Add basic integration tests to test out the APIBonfaceKilz
2021-02-16Register blueprints in gn3/app.pyBonfaceKilz
* main.py: Move blueprint registrations to ... * gn3/app.py (create_app): ... here
2021-02-16Add instructions on how to run the flask appBonfaceKilz
2021-02-16Register gemma blueprintsBonfaceKilz
2021-02-16Add basic worker for processing commandsBonfaceKilz
This will later be replaced with GNU Guile
2021-02-16Add new test cases for run_cmdBonfaceKilz
2021-02-16gn3: commands: Add new procedure for running a commandBonfaceKilz
* gn3/commands.py (run_command): New procedure.
2021-02-15Add linting rules for any scm files. Useful for guix.scmBonfaceKilz
2021-02-15Update README with bootstrap instructions and how to run testsBonfaceKilz
2021-02-15Add genenetwork3 package definitionBonfaceKilz
2021-02-15requirements.txt: Add python-numpy 1.17.3BonfaceKilz
2021-02-15Add default redis configBonfaceKilz
2021-02-15Add test stubbed gemma endpointBonfaceKilz
2021-02-15Bootsrap the flask applicationBonfaceKilz
2021-02-12Add configuration file for the projectBonfaceKilz
2021-02-12Use sorted list of files when calculating md5sums of directoryBonfaceKilz
* gn3/file_utils.py (get_dir_hash): Sort list of files before calculating their md5sums. * tests/unit/test_file_utils.py (test_get_dir_hash): Update test-case md5sum.
2021-02-12Create python-app.ymlBonfaceKilz
2021-02-12Add skeleton flask entry-pointBonfaceKilz
2021-02-12Add custom gn3 exceptionsBonfaceKilz
2021-02-12Add initial requirements.txtBonfaceKilz
Special care should be taken to make sure that this matches the version used in the packaged guix version of this project.
2021-02-12Add new procedure for queueing a commandBonfaceKilz
* gn3/commands.py (queue_cmd): New procedure. * tests/unit/test_commands.py: New test-cases for ^^.
2021-02-12Add new procedure for composing a gemma cmdBonfaceKilz
* gn3/commands.py: New file * tests/unit/test_commands.py: New test-cases for ^^.
2021-02-12Add new procedure to return a python dict from a json fileBonfaceKilz
* gn3/file_utils.py (jsonfile_to_dict): New procedure * tests/unit/test_file_utils.py: New test-cases.
2021-02-12Add new procedure for looking up files in a given ENV variableBonfaceKilz
* gn3/file_utils.py (lookup_file): New function. * tests/unit/test_file_utils.py: New test cases for ^^.
2021-02-12Add function for computing the hash of a directoryBonfaceKilz
2021-02-11Initial commitPjotr Prins
generated by cgit v1.2.3 (git 2.44.0) at 2024-12-26 01:00:50 +0000