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| author | Frederick Muriuki Muriithi | 2025-06-03 12:12:58 -0500 |
|---|---|---|
| committer | Frederick Muriuki Muriithi | 2025-06-03 12:12:58 -0500 |
| commit | fd997d55b745a192f9946de1a7652fd28c700280 (patch) | |
| tree | 9c12494e86f72526a075852bb7e42c02a81ffcff /scripts | |
| parent | 9280e6232152991fca762d74f415b704a452673d (diff) | |
| download | gn-uploader-fd997d55b745a192f9946de1a7652fd28c700280.tar.gz | |
Add more logging to track progress.
Diffstat (limited to 'scripts')
| -rw-r--r-- | scripts/load_phenotypes_to_db.py | 4 |
1 files changed, 4 insertions, 0 deletions
diff --git a/scripts/load_phenotypes_to_db.py b/scripts/load_phenotypes_to_db.py index d2d1d2c..0b1f738 100644 --- a/scripts/load_phenotypes_to_db.py +++ b/scripts/load_phenotypes_to_db.py @@ -282,6 +282,7 @@ def load_data(conn: mysqldb.Connection, job: dict) -> int: samples=samples, control_data=_control_data, filesdir=_outdir) + logger.info("Saved %s new phenotype data rows.", _num_data_rows) # 4. Cross-reference Phenotype, Publication, and PublishData in PublishXRef logger.info("Cross-referencing new phenotypes to their data and publications.") xrefs = cross_reference_phenotypes_publications_and_data( @@ -295,6 +296,8 @@ def load_data(conn: mysqldb.Connection, job: dict) -> int: samples=samples, control_data=_control_data, filesdir=_outdir) + logger.info("Saved %s new phenotype standard error rows.", _num_se_rows) + logger.info("Saving new phenotypes sample counts.") _num_n_rows = save_phenotypes_n(conn=conn, dataidmap=dataidmap, @@ -302,6 +305,7 @@ def load_data(conn: mysqldb.Connection, job: dict) -> int: samples=samples, control_data=_control_data, filesdir=_outdir) + logger.info("Saved %s new phenotype sample counts rows.", num_n_rows) # 6. If entirely new data, update authorisations (break this down) logger.info("Updating authorisation.") update_auth(_token, _species, _population, _dataset, _phenos) |