.gitignore

# Files and folders to exclude from github
# (originally from Jane)

# R projects
.Rproj
.Rproj.user
.Rhistory
.RData
.Ruserdata
*extra_docs
#*2023/clean
#*2023/tmb

#previous folders already uploaded
extra_docs
2021
2022
2023
#*2023/clean
#*2023/tmb

#new folders that won't be uploaded
*2024/alt_models_september
*2024/dev
*2024/safe
*2024/safe_dev
*2024/sept_pt
*2024/nov_pt
*2024/base/figs
*2024/base/mcmc
*2024/base/tables
*2024/base/processed
*2024/data/raw
*2024/m22.5a/apport/_btsobs_apportionment_beta



# single files to exclude
2024/data/user_input/non_comm_catch.csv

# usernames and passwords for db connections
database.csv

# confidential fishery dependent data
*confidential*

# any temporary or to delete files
*tmp*
*delete*
*temp*


# old assessment archive
archive

# other rockfish photos for presentations
photos

# safe documents
safe

# ADMB files
.b0
*.bar
*.cov
*.dep
*.hes
*.tmp
*.log
*.bar
*.cor
*.cout
*.cpp
*.ecm
*.eva
*.exe
*.hst
*.htp
*.mc2
*.mcm
*.obj
*.p01
#*.par
*.psv
#*.rep
*.std
*.out
*.ps
dgs2
diags
*.b0*
*.p0*
*.r0*
*.prf
*.r02
*.plt
*.pin
*.obj
*.htp
gradient.*
*_in.ctl
*_in.dat
# Added for MCMC runs
adaptation.csv
# *xx* means finding those words
*ppl.csv*
unbounded.csv
init.pin
variance
sims

# other file types we don't want to track
*.xlsx
*.xlsm
*.docx
*.pptx
*.png
*.Rdata
*.html


# Windows thumbnail cache files
Thumbs.db

# Latex files
*.aux
*.fdb_latexmk
*.fls
*.out
*.nav
*.toc
*.snm
*.vrb
*.tex.bak
*.bak
auto/

*.Ink

#tmb
*.o
*.dll

#vast
*.RDS
*.RDATA