Code

R docker refactor for lab sessions#122

Code

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griff-rees merged 89 commits intomainalan-turing-institute/clim-recal:mainfrom r-docker-refactoralan-turing-institute/clim-recal:r-docker-refactorCopy head branch name to clipboardFeb 5, 2024

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Commits

Commits on Aug 15, 2023

• Renaming file for better accuracy

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• Renaming file for clarity

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• Updating func and appling BC qmapQuant to three cities

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Commits on Aug 24, 2023

• Moving some files to new folder

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• Script updates for grouping etc

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Commits on Aug 25, 2023

• Correcting precip error in Hads read in

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Commits on Aug 29, 2023

• Correcting precip error in Hads read in

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• Merge branch 'LCAT.data' of https://github.com/alan-turing-institute/clim-recal into LCAT.data

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• Updating fnc for scotland

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• Updating fnc for scotland

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Commits on Aug 31, 2023

• Start the BC for LCAT

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Commits on Sep 5, 2023

• Including fnc for Scotland

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• Deriving seasonal means

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Commits on Sep 7, 2023

• Loading obs data

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• Simplifying code - this might be a conflict later though

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Commits on Sep 12, 2023

• Adding metrics, sorting out fig generation

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• Adding in all runs rather than one and extracting rasters for general assesment

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• Adding loops to deal with the four runs simultaneously

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Commits on Sep 15, 2023

• Updating with more figs

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Commits on Sep 19, 2023

• conversion of val dfs to run over all runs

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• update read_crop.fn.R - this could have been pushed already?

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Commits on Sep 21, 2023

• Added density plot, rmse for each run

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Commits on Sep 22, 2023

• Cleaning up files for LCAT

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• Updates for R pipeline

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Commits on Sep 26, 2023

• Adding pre-processing to within method (qmap in this eg)

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• Sep'ing script for conversion to df

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Commits on Sep 28, 2023

• updating for easier R pipeline

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• Update to script to convert city crops to data frame

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Commits on Sep 29, 2023

• Add notes and fixing function

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Commits on Oct 3, 2023

• Small updated to wet.day and corrected related issue preventing run

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Commits on Oct 4, 2023

• Rewriting BC assessment to be more general for input

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• Resaving to avoid confusion

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Commits on Oct 8, 2023

• Sorting out raster plotting

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Commits on Oct 9, 2023

• Updating metrics so as to work with new data format

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• tidy markdown add kable

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Commits on Nov 22, 2023

• merge: attempt fixing main and Update.Rpipeline merge conflict

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• fix(ci): add pre-commit to check R/ path and apply

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• feat: add notebooks/Assessing_bc_Data_local-mac.rmd

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Commits on Nov 23, 2023

• fix(ci): apply pre-commit change to remainder of R/

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Commits on Dec 6, 2023

• feat: add notebooks/Assessing_bc_Data/Assessing_BC-Data-workshop.RMD

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• feat(refactor): comment out python vs R loading options in Assessing...-workshop.RMD

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Commits on Dec 9, 2023

• refactor(debias): add debias_wrapper.py for potential new python results

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• feat: add RuthUpdates...Rmd notebook

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Commits on Dec 10, 2023

• fix(ci): merge main CI changes

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• Merge remote-tracking branch 'origin/workshop-python-rerun' into ruth-notebook-for-workshop

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• Automate installation of packages

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• Minor modifications in install and import order

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• Remove duplicate library call

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• Adding in the index to look up

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• Recommit installation cell that was overwritten

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• Final notebook that knits

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• adding html rendered notebook

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• small change to format

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Commits on Dec 11, 2023

• feat: add rstudio docker deploy and python.utils.make_user

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• Merge remote-tracking branch 'origin/ruth-notebook-for-workshop' into ruth-notebook-for-workshop

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• feat: add docker config for RStudio users with compose refactor

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• fix(ci): add needed openpyxl dependency

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• fix(ci): only build jupyter for python testing

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• fix: jupyter user permission

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• fix: move chmod to after activation command in jupyter/Dockerfile

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• fix(ci): jupyter build during pytest detach

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• fix(ci): comment out docker compose volume mount for permission

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• fix(ci): fix docker ci and reinstate env var

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• fix(test): add tests/test_user_accounts.xlsx for tests

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• feat: add jupyter to rstuio docker config

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Commits on Dec 27, 2023

• fix(doc): fix docstring formatting in utils.py and ceda_ftp_download.py

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Commits on Jan 16, 2024

• fix(ci): add jupyter_hub config

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Commits on Jan 18, 2024

• fix(ci): correct the port for default compose Jupyter

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• fix(ci): fix quarto render without quartodoc and better speed

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Commits on Jan 19, 2024

• fix(ci): remove echo command in pytest CI

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Commits on Jan 25, 2024

• fix(ci): attempt CI test refactor via miniconda

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Commits on Jan 26, 2024

• fix(ci): remove svg coverage render to test doc render workflow

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• fix(ci): drop svg doc render for testing

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• fix(doc): improve comments in rstudio/Dockerfile

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• feat(doc): add docker docs

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• fix(test): remove commented, refactored debiased tests

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Commits on Jan 27, 2024

• fix(ci): add coverage.svg back into pytest workflow

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• fix(ci): update PYTHON_MODULE_FOLDER and CI push/pull branches

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• fix(ci): update CI push/pull branches

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• feat(ci): update pre-commit-ci/lite-action to v3.0.0

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• fix(ci): set pre-commit-ci/lite to main

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• fix(ci): FIX set pre-commit-ci/lite to main

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• fix(ci): refactor doc CI via miniconda

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• fix: add r-quarto back in environment.yml

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Commits on Jan 30, 2024

• fix(refactor): refactor docker deploy and improve related code and docs

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Commits on Feb 2, 2024

• fix(ci): rewrite compose/jupyter/Dockerfile to fix env activation

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• fix(doc): improve python/resampling/resampling_hads.py documentation

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Commits on Feb 5, 2024

• fix(doc): fix typos in data_loader.py and utils.py

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• fix(doc): improve resampling_hads and _quarto.yml config

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