Age | Commit message (Collapse) | Author |
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* 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
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* 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
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* 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.
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* 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.
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* wqflask/jobs/__init__.py: New jobs module
* wqflask/jobs/jobs.py: New jobs module
* wqflask/scripts/run_external.py: new external process manager.
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The xapian indexing script has been moved to genenetwork3. All further
development will happen there.
* wqflask/scripts/index.py: Delete file.
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* 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.
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* wqflask/scripts/index.py (main): Index fields with prefixes, and add
values for range queries.
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* wqflask/utility/monads.py (MonadicDictCursor): Delete class.
(sql_query_mdict): New function.
* wqflask/scripts/index.py: Import sql_query_mdict instead of
MonadicDictCursor.
(main): Use sql_query_mdict.
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We reopen the SQL database once for each query because it times out if
kept waiting.
* wqflask/scripts/index.py (main): Open xapian database once, but SQL
database once for each query.
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* wqflask/scripts/index.py (write_document): New function.
(main): Use write_document.
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* wqflask/scripts/index.py: New file.
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* wqflask/scripts/profile_corrs.py: Remove sqlalchemy, connect_db and
shutdown_session.
(__main__): Remove "g.db".
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Add a script to enable profiling the code.
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