Merge pull request #17 from AgPipeline/scif

Bringing develop up to scif - no review

.gitignore

@@ -1,2 +1,111 @@
-.idea/*
-*.pyc
+# 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/
+*.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/
+.coverage
+.coverage.*
+.cache
+nosetests.xml
+coverage.xml
+*.cover
+.hypothesis/
+.pytest_cache/
+
+# Translations
+*.mo
+*.pot
+
+# Django stuff:
+*.log
+local_settings.py
+db.sqlite3
+
+# Flask stuff:
+instance/
+.webassets-cache
+
+# Scrapy stuff:
+.scrapy
+
+# Sphinx documentation
+docs/_build/
+
+# PyBuilder
+target/
+
+# Jupyter Notebook
+.ipynb_checkpoints
+
+# pyenv
+.python-version
+
+# celery beat schedule file
+celerybeat-schedule
+
+# 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/
+
+# pycharm
+.idea
+
+# Testing folder
+test
+

Dockerfile

@@ -1,6 +1,7 @@
-FROM FROM agdrone/drone-base-image:1.2
+FROM agdrone/agpypeline:1.0
 LABEL maintainer="Chris Schnaufer <[email protected]>"
 
+# Start installing things
 COPY requirements.txt packages.txt /home/extractor/
 
 USER root
@@ -26,5 +27,10 @@ RUN [ -s /home/extractor/requirements.txt ] && \
     rm /home/extractor/requirements.txt)
 
 USER extractor
+COPY configuration.py soilmask.py /home/extractor/
 
-COPY configuration.py transformer.py /home/extractor/
+USER root
+RUN chmod a+x /home/extractor/soilmask.py
+
+USER extractor
+ENTRYPOINT ["/home/extractor/soilmask.py"]

README.md

@@ -86,4 +86,3 @@ Note that the paths provided are relative to the running image (see the --mount
 - `--working_space "/mnt"` specifies the folder to use as a workspace
 - `--metadata "/mnt/08f445ef-b8f9-421a-acf1-8b8c206c1bb8_metadata.cleaned.json"` is the name of the source metadata to be cleaned
 - `"/mnt/08f445ef-b8f9-421a-acf1-8b8c206c1bb8_left.tif"` is the name of the image to mask
-

configuration.py

@@ -1,29 +1,36 @@
 """Contains transformer configuration information
 """
+from agpypeline.configuration import Configuration
 
-# The version number of the transformer
-TRANSFORMER_VERSION = '2.0'
 
-# The transformer description
-TRANSFORMER_DESCRIPTION = 'Stereo RGB Image Enhancement & Masking'
+class ConfigurationSoilmask(Configuration):
+    """Configuration information for Soil Mask transformer"""
+    # Silence this error until we have public methods
+    # pylint: disable=too-few-public-methods
 
-# Short name of the transformer
-TRANSFORMER_NAME = 'terra.stereo-rgb.rgbmask'
+    # The version number of the transformer
+    transformer_version = '2.0'
 
-# The name of the author of the extractor
-AUTHOR_NAME = 'Chris Schnaufer'
+    # The transformer description
+    transformer_description = 'Stereo RGB Image Enhancement & Masking'
 
-# The email of the author of the extractor
-AUTHOR_EMAIL = '[email protected]'
+    # Short name of the transformer
+    transformer_name = 'terra.stereo-rgb.rgbmask'
 
-# Reposity URI of where the source code lives
-REPOSITORY = 'https://github.com/Chris-Schnaufer/rgbmask.git'
+    # The name of the author of the extractor
+    author_name = 'Chris Schnaufer'
 
-# Contributors to this transformer
-CONTRUBUTORS = ['Max Burnette', 'Zongyang Li', 'Todd Nicholson']
+    # The email of the author of the extractor
+    author_email = '[email protected]'
 
-# The sensor associated with the transformer
-TRANSFORMER_SENSOR = 'stereoTop'
+    # Repository URI of where the source code lives
+    repository = 'https://github.com/Chris-Schnaufer/rgbmask.git'
 
-# The transformer type (eg: 'rgbmask', 'plotclipper')
-TRANSFORMER_TYPE = 'rgb_mask'
+    # Contributors to this transformer
+    contributors = ['Max Burnette', 'Zongyang Li', 'Todd Nicholson']
+
+    # The sensor associated with the transformer
+    transformer_sensor = 'stereoTop'
+
+    # The transformer type (eg: 'rgbmask', 'plotclipper')
+    transformer_type = 'rgb_mask'

packages.txt

@@ -1,4 +1 @@
-libsm6
-libxext6
-libxrender1
-libglib2.0-0
+

requirements.txt

@@ -1,2 +1,4 @@
 scikit-image
 opencv-python
+agpypeline
+