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gn-uploader
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gn-uploader: Data uploader for GeneNetwork
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2024-04-04
Remove unused database connection.
Frederick Muriuki Muriithi
2024-04-03
Reduce size of data inserted per query
Frederick Muriuki Muriithi
2024-03-29
Quiet linter.
Frederick Muriuki Muriithi
2024-03-22
Notify user if identifiers are not consistent.
Frederick Muriuki Muriithi
2024-03-22
Map names in files to names in database.
Frederick Muriuki Muriithi
2024-03-22
Fix linting issue.
Frederick Muriuki Muriithi
2024-03-20
Fix bug: correctly merge standard-error values in file to data in db
Frederick Muriuki Muriithi
2024-02-28
Fix bug: fetch from cursor, not return from cursor.execute(…)
load-raw-data-no-parsing
Frederick Muriuki Muriithi
2024-02-21
Check that samples/cases are consistent
Frederick Muriuki Muriithi
2024-02-21
Pass 'filename' value to error checker function.
Frederick Muriuki Muriithi
2024-02-20
Track filename in the errors
Frederick Muriuki Muriithi
2024-02-15
Filter out NULL values
Frederick Muriuki Muriithi
2024-02-15
Only log out information if the check is actually run.
Frederick Muriuki Muriithi
2024-02-13
Add some parallelism to the QC Checks
Frederick Muriuki Muriithi
2024-02-13
Provide nice UI progress indicators.
Frederick Muriuki Muriithi
2024-02-12
Check for errors in the 'phenose' file.
Frederick Muriuki Muriithi
2024-02-12
Check for errors in the 'pheno' file.
Frederick Muriuki Muriithi
2024-02-12
Collect and display errors on 'geno' files in the bundle.
Frederick Muriuki Muriithi
2024-02-12
Add scaffolding for running individual files' QC checks
Frederick Muriuki Muriithi
2024-02-12
Extract missing files check to external function
Frederick Muriuki Muriithi
2024-02-12
Retrive and display generic bundle errors
Frederick Muriuki Muriithi
2024-02-12
R/qtl2 QC: Set up scaffolding for QC UI
Frederick Muriuki Muriithi
2024-02-12
Provide better error messaging
Frederick Muriuki Muriithi
2024-02-05
Run QC on the 'geno' file in R/qtl2 bundle.
Frederick Muriuki Muriithi
2024-02-05
Add a QC step: Check all listed files exist
Frederick Muriuki Muriithi
2024-02-05
Fix linting and type errors.
Frederick Muriuki Muriithi
2024-01-24
Checks: Update code and tests to ensure all checks pass.
Frederick Muriuki Muriithi
2024-01-24
redis-prefix: Update file validation code
Frederick Muriuki Muriithi
2024-01-23
Update scripts to use redis prefix.
Frederick Muriuki Muriithi
2024-01-22
scripts: Pass in logger to get detailed updates.
Frederick Muriuki Muriithi
2024-01-22
UI: Show progress of R/qtl2 bundle processing.
Frederick Muriuki Muriithi
2024-01-20
Fetch sample/case names from database
Frederick Muriuki Muriithi
2024-01-19
scripts: Process R/qtl2 bundle
Frederick Muriuki Muriithi
2024-01-16
Filter out items with values of `None`.
Frederick Muriuki Muriithi
2024-01-15
Update imports: `take` was moved to different package.
Frederick Muriuki Muriithi
2024-01-15
Process the `pheno` files.
Frederick Muriuki Muriithi
2024-01-15
Initialise `install_phenos` script.
Frederick Muriuki Muriithi
2024-01-15
Extract common structure into separate modules.
Frederick Muriuki Muriithi
2024-01-11
Update pmap data in the database.
Frederick Muriuki Muriithi
2024-01-11
Update gmap data in the database
Frederick Muriuki Muriithi
2024-01-11
Cleanup linting and typing errors.
Frederick Muriuki Muriithi
2024-01-11
CLI: Require datasetid as an argument.
Frederick Muriuki Muriithi
2024-01-10
Provide convenience functions to avoid subtle call errors
Frederick Muriuki Muriithi
2024-01-10
Cross-reference genotype data to the dataset.
Frederick Muriuki Muriithi
2024-01-10
Insert genotype data.
Frederick Muriuki Muriithi
2024-01-10
Cross-reference individuals to populations.
Frederick Muriuki Muriithi
2024-01-10
Insert any new individuals/samples into the database.
Frederick Muriuki Muriithi
2024-01-10
Insert any new markers
Frederick Muriuki Muriithi
2024-01-09
WIP: Install genotypes from R/qtl2 bundle
Frederick Muriuki Muriithi
2024-01-09
Fix linting errors
Frederick Muriuki Muriithi
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