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Merged Gervaise Henry requested to merge develop into 15-auto.bagit.download
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# Byte-compiled / optimized / DLL files
__pycache__/
*.py[cod]
*$py.class
# C extensions
# Created by https://www.gitignore.io/api/r,perl,linux,macos,python,windows,microsoftoffice
*.so
# Edit at https://www.gitignore.io/?templates=r,perl,linux,macos,python,windows,microsoftoffice
# Distribution / packaging
.Python
build/
develop-eggs/
dist/
downloads/
eggs/
.eggs/
lib/
lib64/
parts/
sdist/
var/
wheels/
*.egg-info/
.installed.cfg
*.egg
# PyInstaller
# Created by https://www.gitignore.io/api/r,perl,macos,linux,python,windows
# Edit at https://www.gitignore.io/?templates=r,perl,macos,linux,python,windows
### Linux ###
### Linux ###
*~
*~
@@ -71,6 +45,27 @@ Network Trash Folder
@@ -71,6 +45,27 @@ Network Trash Folder
Temporary Items
Temporary Items
.apdisk
.apdisk
 
### MicrosoftOffice ###
 
*.tmp
 
 
# Word temporary
 
~$*.doc*
 
 
# Word Auto Backup File
 
Backup of *.doc*
 
 
# Excel temporary
 
~$*.xls*
 
 
# Excel Backup File
 
*.xlk
 
 
# PowerPoint temporary
 
~$*.ppt*
 
 
# Visio autosave temporary files
 
*.~vsd*
 
### Perl ###
### Perl ###
!Build/
!Build/
.last_cover_stats
.last_cover_stats
@@ -165,15 +160,6 @@ coverage.xml
@@ -165,15 +160,6 @@ coverage.xml
*.mo
*.mo
*.pot
*.pot
# Django stuff:
*.log
local_settings.py
db.sqlite3
# Flask stuff:
instance/
.webassets-cache
# Scrapy stuff:
# Scrapy stuff:
.scrapy
.scrapy
@@ -183,31 +169,22 @@ docs/_build/
@@ -183,31 +169,22 @@ docs/_build/
# PyBuilder
# PyBuilder
target/
target/
# Jupyter Notebook
.ipynb_checkpoints
# IPython
profile_default/
ipython_config.py
# pyenv
# pyenv
.python-version
.python-version
 
# pipenv
 
# According to pypa/pipenv#598, it is recommended to include Pipfile.lock in version control.
 
# However, in case of collaboration, if having platform-specific dependencies or dependencies
 
# having no cross-platform support, pipenv may install dependencies that don't work, or not
 
# install all needed dependencies.
 
#Pipfile.lock
 
# celery beat schedule file
# celery beat schedule file
celerybeat-schedule
celerybeat-schedule
# SageMath parsed files
# SageMath parsed files
*.sage.py
*.sage.py
# Environments
.env
.venv
env/
venv/
ENV/
env.bak/
venv.bak/
# Spyder project settings
# Spyder project settings
.spyderproject
.spyderproject
.spyproject
.spyproject
@@ -215,6 +192,11 @@ venv.bak/
@@ -215,6 +192,11 @@ venv.bak/
# Rope project settings
# Rope project settings
.ropeproject
.ropeproject
 
# Mr Developer
 
.mr.developer.cfg
 
.project
 
.pydevproject
 
# mkdocs documentation
# mkdocs documentation
/site
/site
@@ -226,9 +208,6 @@ dmypy.json
@@ -226,9 +208,6 @@ dmypy.json
# Pyre type checker
# Pyre type checker
.pyre/
.pyre/
### Python Patch ###
.venv/
### R ###
### R ###
# History files
# History files
.Rhistory
.Rhistory
@@ -237,6 +216,9 @@ dmypy.json
@@ -237,6 +216,9 @@ dmypy.json
# Session Data files
# Session Data files
.RData
.RData
 
# User-specific files
 
.Ruserdata
 
# Example code in package build process
# Example code in package build process
*-Ex.R
*-Ex.R
@@ -257,7 +239,7 @@ vignettes/*.pdf
@@ -257,7 +239,7 @@ vignettes/*.pdf
.httr-oauth
.httr-oauth
# knitr and R markdown default cache directories
# knitr and R markdown default cache directories
/*_cache/
*_cache/
/cache/
/cache/
# Temporary files created by R markdown
# Temporary files created by R markdown
@@ -271,6 +253,7 @@ vignettes/*.pdf
@@ -271,6 +253,7 @@ vignettes/*.pdf
### Windows ###
### Windows ###
# Windows thumbnail cache files
# Windows thumbnail cache files
Thumbs.db
Thumbs.db
 
Thumbs.db:encryptable
ehthumbs.db
ehthumbs.db
ehthumbs_vista.db
ehthumbs_vista.db
@@ -293,7 +276,7 @@ $RECYCLE.BIN/
@@ -293,7 +276,7 @@ $RECYCLE.BIN/
# Windows shortcuts
# Windows shortcuts
*.lnk
*.lnk
# End of https://www.gitignore.io/api/r,perl,macos,linux,python,windows
# End of https://www.gitignore.io/api/r,perl,linux,macos,python,windows,microsoftoffice
# nextflow analysis folders/files
# nextflow analysis folders/files
/test_data/*
/test_data/*