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Merge pull request #2 from fvalle1/develop
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Develop
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fvalle1 authored Oct 19, 2020
2 parents 7b23f08 + b9f6cbe commit fb57723
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142 changes: 142 additions & 0 deletions .dockerignore
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# Byte-compiled / optimized / DLL files
__pycache__/
*.py[cod]
*$py.class

# C extensions
*.so

# Distribution / packaging
.Python
build/
develop-eggs/
dist/
downloads/
eggs/
.eggs/
lib/
lib64/
parts/
sdist/
var/
wheels/
pip-wheel-metadata/
share/python-wheels/
*.egg-info/
.installed.cfg
*.egg
MANIFEST

# PyInstaller
# Usually these files are written by a python script from a template
# before PyInstaller builds the exe, so as to inject date/other infos into it.
*.manifest
*.spec

# Installer logs
pip-log.txt
pip-delete-this-directory.txt

# Unit test / coverage reports
htmlcov/
.tox/
.nox/
.coverage
.coverage.*
.cache
nosetests.xml
coverage.xml
*.cover
*.py,cover
.hypothesis/
.pytest_cache/

# Translations
*.mo
*.pot

# Django stuff:
*.log
local_settings.py
db.sqlite3
db.sqlite3-journal

# Flask stuff:
instance/
.webassets-cache

# Scrapy stuff:
.scrapy

# Sphinx documentation
docs/_build/

# PyBuilder
target/

# Jupyter Notebook
.ipynb_checkpoints

# IPython
profile_default/
ipython_config.py

# pyenv
.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

# PEP 582; used by e.g. github.com/David-OConnor/pyflow
__pypackages__/

# Celery stuff
celerybeat-schedule
celerybeat.pid

# SageMath parsed files
*.sage.py

# Environments
.env
.venv
env/
venv/
ENV/
env.bak/
venv.bak/

# Spyder project settings
.spyderproject
.spyproject

# Rope project settings
.ropeproject

# mkdocs documentation
/site

# mypy
.mypy_cache/
.dmypy.json
dmypy.json

# Pyre type checker
.pyre/
*.pdf
*.png
*.scores
*.DS_Store
*.csv
*.tsv
*.pkl
*.h5
*.ipynb

breast/
lung/
unified_lung
3 changes: 3 additions & 0 deletions .dvc/.gitignore
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/config.local
/tmp
/cache
2 changes: 2 additions & 0 deletions .dvc/config
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['remote "mydrive"']
url = gdrive://1_0N58fnYu8CrnEgNIj4jKWLUOlcz5Emx
30 changes: 30 additions & 0 deletions .dvc/plots/confusion.json
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{
"$schema": "https://vega.github.io/schema/vega-lite/v4.json",
"data": {
"values": "<DVC_METRIC_DATA>"
},
"title": "<DVC_METRIC_TITLE>",
"mark": "rect",
"encoding": {
"x": {
"field": "<DVC_METRIC_X>",
"type": "nominal",
"sort": "ascending",
"title": "<DVC_METRIC_X_LABEL>"
},
"y": {
"field": "<DVC_METRIC_Y>",
"type": "nominal",
"sort": "ascending",
"title": "<DVC_METRIC_Y_LABEL>"
},
"color": {
"aggregate": "count",
"type": "quantitative"
},
"facet": {
"field": "rev",
"type": "nominal"
}
}
}
29 changes: 29 additions & 0 deletions .dvc/plots/default.json
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{
"$schema": "https://vega.github.io/schema/vega-lite/v4.json",
"data": {
"values": "<DVC_METRIC_DATA>"
},
"title": "<DVC_METRIC_TITLE>",
"mark": {
"type": "line"
},
"encoding": {
"x": {
"field": "<DVC_METRIC_X>",
"type": "quantitative",
"title": "<DVC_METRIC_X_LABEL>"
},
"y": {
"field": "<DVC_METRIC_Y>",
"type": "quantitative",
"title": "<DVC_METRIC_Y_LABEL>",
"scale": {
"zero": false
}
},
"color": {
"field": "rev",
"type": "nominal"
}
}
}
27 changes: 27 additions & 0 deletions .dvc/plots/scatter.json
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{
"$schema": "https://vega.github.io/schema/vega-lite/v4.json",
"data": {
"values": "<DVC_METRIC_DATA>"
},
"title": "<DVC_METRIC_TITLE>",
"mark": "point",
"encoding": {
"x": {
"field": "<DVC_METRIC_X>",
"type": "quantitative",
"title": "<DVC_METRIC_X_LABEL>"
},
"y": {
"field": "<DVC_METRIC_Y>",
"type": "quantitative",
"title": "<DVC_METRIC_Y_LABEL>",
"scale": {
"zero": false
}
},
"color": {
"field": "rev",
"type": "nominal"
}
}
}
39 changes: 39 additions & 0 deletions .dvc/plots/smooth.json
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{
"$schema": "https://vega.github.io/schema/vega-lite/v4.json",
"data": {
"values": "<DVC_METRIC_DATA>"
},
"title": "<DVC_METRIC_TITLE>",
"mark": {
"type": "line"
},
"encoding": {
"x": {
"field": "<DVC_METRIC_X>",
"type": "quantitative",
"title": "<DVC_METRIC_X_LABEL>"
},
"y": {
"field": "<DVC_METRIC_Y>",
"type": "quantitative",
"title": "<DVC_METRIC_Y_LABEL>",
"scale": {
"zero": false
}
},
"color": {
"field": "rev",
"type": "nominal"
}
},
"transform": [
{
"loess": "<DVC_METRIC_Y>",
"on": "<DVC_METRIC_X>",
"groupby": [
"rev"
],
"bandwidth": 0.3
}
]
}
3 changes: 3 additions & 0 deletions .dvcignore
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# Add patterns of files dvc should ignore, which could improve
# the performance. Learn more at
# https://dvc.org/doc/user-guide/dvcignore
11 changes: 11 additions & 0 deletions .gitignore
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Expand Up @@ -127,3 +127,14 @@ dmypy.json

# Pyre type checker
.pyre/
*.pdf
*.png
*.scores
*.DS_Store
*.done
*.err
*.tsv
*.pdf
unified_lung/data/
*.csv
*.dat
3 changes: 3 additions & 0 deletions .gitmodules
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[submodule "tree_plotter"]
path = tree_plotter
url = git@github.com:fvalle1/tree_plotter
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