- 06 Mar, 2021 1 commit
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Chris Jewell authored
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- 04 Mar, 2021 5 commits
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Chris Jewell authored
CHANGES 1. Most tasks touched to use netCDF4 inferencedata file. 2. Added netCDF4 metadata copy to covid.util 3. Updated model_spec.py to use xarray 4. Updated covid.ruffus_pipeline to use netCDF4 files, adding pipeline metadata 5. Updated pyproject.toml 6. Removed chunk specification in inference.py. Defer to automatic chunking for now.
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Chris Jewell authored
Added cumulative incidence to `summary_longformat.xlsx` See merge request !29
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Chris Jewell authored
CHANGES: 1. Added code in `summary_longformat.py` to calculate cumulative incidence; 2. Switched from `openpyxl` to `xlsxwriter` for lower memory usage when writing to summary_longformat.xlsx.
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Chris Jewell authored
Added daily absolute incidence and incidence per 100k to summary_longformat.py See merge request !28
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Chris Jewell authored
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- 03 Mar, 2021 2 commits
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Chris Jewell authored
Added insample7 summary to summary_longformat.xlsx See merge request !27
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Chris Jewell authored
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- 24 Feb, 2021 6 commits
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Chris Jewell authored
Weekly 100k See merge request !26
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Chris Jewell authored
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Chris Jewell authored
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Chris Jewell authored
Switched to NetCDF4 storage of predictive output See merge request !25
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Changes: 1. Where xarrays were pickled to disc, we now use xarray.to_netcdf 2. Where xarrays were read from Python pickles, we now use xarray.load_dataset (cherry picked from commit 63519eb3)
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Chris Jewell authored
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- 17 Feb, 2021 1 commit
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Chris Jewell authored
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- 15 Feb, 2021 4 commits
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Chris Jewell authored
Fixed incorrect events dimension See merge request !22
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Chris Jewell authored
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Chris Jewell authored
Created lower bound for posterior events chunk size See merge request !21
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Chris Jewell authored
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- 10 Feb, 2021 4 commits
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Chris Jewell authored
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Chris Jewell authored
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Chris Jewell authored
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Chris Jewell authored
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- 09 Feb, 2021 2 commits
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Chris Jewell authored
Add missing 21 day incidence and prevalence summary. See merge request !20
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Chris Jewell authored
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- 08 Feb, 2021 4 commits
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Chris Jewell authored
Added mean summary longformat See merge request !19
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Chris Jewell authored
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Chris Jewell authored
Make data summaries weekly See merge request !18
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Chris Jewell authored
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- 07 Feb, 2021 2 commits
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Chris Jewell authored
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Chris Jewell authored
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- 04 Feb, 2021 1 commit
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Chris Jewell authored
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- 03 Feb, 2021 8 commits
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Chris Jewell authored
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Chris Jewell authored
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Chris Jewell authored
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Chris Jewell authored
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Chris Jewell authored
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Chris Jewell authored
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Chris Jewell authored
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Chris Jewell authored
CHANGES: 1. Introduced default unit traffic flow; 2. Removed old test data from data directory. This now contains real static data only. 3. Brought README.md up to date. 4. Removed extraneous files from root project directory.
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