genenetwork2/wqflask/scripts, branch testing GeneNetwork (2nd generation) http://git.genenetwork.org/genenetwork2/atom?h=testing 2023-12-29T19:01:46+00:00 Namespace all modules under gn2. 2023-12-29T19:01:46+00:00 Arun Isaac 2023-12-29T18:55:37+00:00 urn:sha1:204a308be0f741726b9a620d88fbc22b22124c81 We move all modules under a gn2 directory. This is important for "correct" packaging and deployment as a Guix service. Provide default `CORRELATION_COMMAND` setting. Remove unused import. 2023-10-06T08:31:18+00:00 Frederick Muriuki Muriithi 2023-10-06T08:31:18+00:00 urn:sha1:bdcfb440fd9fd8d0fa2c70e3fe1bd0a1bc9d01e2 scripts: Provide help info for script. 2023-01-24T09:08:07+00:00 Frederick Muriuki Muriithi 2023-01-24T09:08:07+00:00 urn:sha1:72ba40a0f4174232937af111a11e7b91d9edc707 scripts: add GN2 results parsing to parser script 2022-12-05T09:17:59+00:00 Frederick Muriuki Muriithi 2022-12-05T09:17:59+00:00 urn:sha1:47f032329f967440f44889ee856f1a8510fb773c * wqflask/scripts/parse_corr_gn1_results_to_csv.py: Rename script * wqflask/scripts/parse_corr_html_results_to_csv.py: * Use argparse to parse CLI arguments * Add parsing for GN2 results jobs: Add debug UI 2022-12-03T03:43:27+00:00 Frederick Muriuki Muriithi 2022-12-03T03:43:27+00:00 urn:sha1:1a651da72faf987f7e3d0c7ba4c60cafe850c7a0 * wqflask/scripts/run_external.py: Save the actual return code * wqflask/wqflask/__init__.py: Use new jobs blueprint * wqflask/wqflask/api/jobs.py: Add new jobs debug route * wqflask/wqflask/templates/jobs/debug.html: new template for when job is found * wqflask/wqflask/templates/jobs/no-such-job.html: new template for when the job is not found mechanical-rob: Parser for GN1 results and some sample results 2022-11-25T10:38:12+00:00 Frederick Muriuki Muriithi 2022-11-25T10:29:06+00:00 urn:sha1:e33a3a78d33f409ae20c8486d0bd2453f189e2b1 * test/requests/correlation_results_text_files/*results.csv: csv files with sample results from GN1 for the trait `1435464_at` in dataset `HC_M2_0606_P`. * wqflask/scripts/parse_corr_gn1_results_to_csv.py: parser for results from GN1 when saved to a html file. Refactor: run correlation computation externally 2022-10-28T12:58:01+00:00 Frederick Muriuki Muriithi 2022-10-28T08:51:50+00:00 urn:sha1:0bb49f9873e958cd480f7c9fc20f3a8db6f62003 * wqflask/scripts/corr_compute.py: move correlation computation to external script. * wqflask/wqflask/templates/loading_corrs.html: Provide UI to display while computation is still not complete. * wqflask/wqflask/views.py: Dispatch correlation computation to external script and display appropriate UI for each valid state of the computation. Add external process manager 2022-10-28T12:55:30+00:00 Frederick Muriuki Muriithi 2022-10-24T11:14:17+00:00 urn:sha1:560eb051e127fe4b8b93104200fe55512a72038f * wqflask/jobs/__init__.py: New jobs module * wqflask/jobs/jobs.py: New jobs module * wqflask/scripts/run_external.py: new external process manager. Remove xapian indexing script. 2022-10-28T08:00:58+00:00 Arun Isaac 2022-10-28T08:00:58+00:00 urn:sha1:38e7b62c2e94fe4ae1dbaa91349b7b36792685ac The xapian indexing script has been moved to genenetwork3. All further development will happen there. * wqflask/scripts/index.py: Delete file. Retrieve year as integer. 2022-09-29T10:45:48+00:00 Arun Isaac 2022-09-29T10:35:11+00:00 urn:sha1:ef17e6b57b267922ad0af2423e5d6d523458c8ed * wqflask/scripts/index.py (main): Retrieve year as an integer from the SQL database. * wqflask/wqflask/gsearch.py (GSearch.__init__): Convert year from integer to string.