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.dockerignore
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.git*
.gcloudignore
/.idea
/docs
/user
/stubs
/.mypy_cache
/.benchmarks
# Compiled source #
###################
*.pyc
**/__pycache__/
# OS generated files #
######################
.DS_Store
.DS_Store?
._*
# VIM temp files #
##################
*.swp
# Coverage file #
#################
.coverage
coverage.xml
# Nosetests and Pytest #
########################
nosetests.xml
nosetests.*.xml
.pytest_cache
/unittests.xml
# IPython notebook files #
##########################
.ipynb_checkpoints
# Output files #
################
/out
/colony/out
reconstruction/ecoli/scripts/nca/out/
# Cached sim data #
###################
cached
# Fixtures #
############
/fixtures/
# C extensions #
################
*.so
*.o
# Cython generated C #
######################
/wholecell/utils/_build_sequences.c
/wholecell/utils/_fastsums.c
/wholecell/utils/mc_complexation.c
/wholecell/utils/polymerize.c
# Cython generated HTML listings #
##################################
/wholecell/utils/_build_sequences.html
/wholecell/utils/_fastsums.html
/wholecell/utils/mc_complexation.html
/wholecell/utils/polymerize.html
# kernprof.py output #
######################
*.lprof
*.prof
# pyenv python version #
########################
.python-version
# files created from templates #
################################
*my_launchpad*.yaml
*my_qadapter*.yaml
# Fireworks output #
####################
launcher_*
block_*
FW.json
# Parca output #
#################
reconstruction/ecoli/dataclasses/process/equilibrium_odes.py
reconstruction/ecoli/dataclasses/process/two_component_system_odes.py
reconstruction/ecoli/dataclasses/process/two_component_system_odes_parca.py
reconstruction/ecoli/dataclasses/process/two_component_system_odes_fitter.py
# Sublime Files #
#################
*.sublime*
# Misc #
########
*.cPickle
*.png
*.csv#
*.pickle
*.log
*.hdf
*.tar.gz
/build/
/.mypy_cache/
secrets.*
reconstruction/ecoli/scripts/nca/data/regulon-db/*.tsv
# LaTeX compilation files #
###########################
*.aux
*.bbl
*.blg
*.fdb_latexmk
*.fls
*.synctex.gz