.gitignore

# Python stuff
Pipfile.lock
**/*.pyc
venv/
env/
condaenv/
.pytest_cache
*.cprof
*.egg-info

# Sphinx docs
_build
docs/examples

# Benchmarking
benchmark.json
.benchmarks/

# IDE stuff
.idea
.spyderworkspace
.vscode
*.ipynb
/.vs
/AuTuMN.sln
/AuTuMN.pyproj.user
/AuTuMN.pyproj

# Images
*.png

# Data
*.db
*.parquet

# Runtime artifacts
logs/
*.log
*.pkl
*ipynb_checkpoints*

# Ignore notebooks by default, but users can add with -f
notebooks/

# Similarly, assume pickles are not to be committed
*.pickle
*.pkl

# Track encrypted input database.
!data/inputs/inputs.db

# Website stuff
node_modules/
.next/
website.json
out/

# Python packaging stuff
autumn.egg*
build/
dist/

# R stuff
.Rhistory

# Scripts, secrets
osx_boot.sh
*.secret.*
fil-result/

# Old model runs
data/marshall_islands
data/mongolia
data/covid_*
data/sir_example_*

# Models runs and calibrations
data/outputs

# TeX stuff (all the automatically generated files, except .log which is included above)
docs/tex/user/

# Random stuff

saved_*

data/test_get_sample/opti_sample.csv
data/xls/data_liberia.csv
data/pbi_outputs_for_opti/by_age/fully_immune/output_table_fully_immune_by_age.csv
data/pbi_outputs_for_opti/by_location/fully_immune/output_table_fully_immune_by_location.csv

# ignoring marshall islands figures and databases
autumn/projects/tuberculosis/marshall_islands/outputs/all_outputs/*

# ignore Romain's remote output runs
user/rragonnet/remote_run_outputs
user/rragonnet/temp/