Merge develop branch into main (#1)

* Initial commit of code base

---------

Co-authored-by: Michael Demoret <[email protected]>

.gitattributes

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+images/** filter=lfs diff=lfs merge=lfs -text

.gitignore

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+###### Place new entries directly below this line! ######
+
+# Ignore anything in the ./.tmp directory
+.tmp/
+
+# Ignore user-generated fiass databases
+vdb/
+
+# Explicitly ignore .vscode/. Shared settings should go in morpheus.code-workspace
+# and user settings will go in .vscode/
+.vscode/
+
+# Ignore .sqlite cache files
+*.sqlite
+
+
+##### Do not alter the items below this line! #####
+########## They are managed by a script! ##########
+
+# Created by https://www.gitignore.io/api/vim,c++,cmake,python,synology
+
+### C++ ###
+# Prerequisites
+*.d
+
+# Compiled Object files
+*.slo
+*.lo
+*.o
+*.obj
+
+# Precompiled Headers
+*.gch
+*.pch
+
+# Compiled Dynamic libraries
+*.so
+*.dylib
+*.dll
+
+# Fortran module files
+*.mod
+*.smod
+
+# Compiled Static libraries
+*.lai
+*.la
+*.a
+*.lib
+
+# Executables
+*.exe
+*.out
+*.app
+
+### CMake ###
+CMakeCache.txt
+CMakeFiles
+CMakeScripts
+Testing
+cmake_install.cmake
+install_manifest.txt
+compile_commands.json
+CTestTestfile.cmake
+
+### Python ###
+# Byte-compiled / optimized / DLL files
+__pycache__/
+*.py[cod]
+*$py.class
+
+# C extensions
+
+# 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/
+
+### Synology ###
+# Thumbnails
+@eaDir
+# Recycle bin
+\#recycle
+
+### Vim ###
+# Swap
+[._]*.s[a-v][a-z]
+[._]*.sw[a-p]
+[._]s[a-rt-v][a-z]
+[._]ss[a-gi-z]
+[._]sw[a-p]
+
+# Session
+Session.vim
+
+# Temporary
+.netrwhist
+*~
+# Auto-generated tag files
+tags
+# Persistent undo
+[._]*.un~
+
+
+# End of https://www.gitignore.io/api/vim,c++,cmake,python,synology

Dockerfile

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+# SPDX-FileCopyrightText: Copyright (c) 2024, NVIDIA CORPORATION & AFFILIATES. All rights reserved.
+# SPDX-License-Identifier: Apache-2.0
+#
+# Licensed under the Apache License, Version 2.0 (the "License");
+# you may not use this file except in compliance with the License.
+# You may obtain a copy of the License at
+#
+# http://www.apache.org/licenses/LICENSE-2.0
+#
+# Unless required by applicable law or agreed to in writing, software
+# distributed under the License is distributed on an "AS IS" BASIS,
+# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
+# See the License for the specific language governing permissions and
+# limitations under the License.
+
+ARG BASE_IMG=nvcr.io/nvidia/cuda
+ARG BASE_IMG_TAG=12.5.1-base-ubuntu22.04
+
+FROM ${BASE_IMG}:${BASE_IMG_TAG} as base
+
+# Install necessary dependencies using apt-get
+RUN apt-get update && apt-get install -y \
+      git \
+      git-lfs \
+      wget \
+    && apt-get clean
+
+# Install miniconda
+RUN wget https://repo.anaconda.com/miniconda/Miniconda3-latest-Linux-x86_64.sh -O /tmp/miniconda.sh \
+    && bash /tmp/miniconda.sh -b -p /opt/conda \
+    && rm /tmp/miniconda.sh
+
+# Add conda to the PATH
+ENV PATH=/opt/conda/bin:$PATH
+
+# Install Mamba, a faster alternative to conda, within the base environment
+RUN --mount=type=cache,id=conda_pkgs,target=/opt/conda/pkgs,sharing=locked \
+    conda install -y mamba -n base -c conda-forge
+
+# Create base environment
+RUN --mount=type=cache,id=conda_pkgs,target=/opt/conda/pkgs,sharing=locked \
+    conda create -y --name morpheus-vuln-analysis
+
+# Activate the environment (make it default for subsequent commands)
+RUN echo "source activate morpheus-vuln-analysis" >> ~/.bashrc
+
+# Set default shell to bash
+SHELL ["/bin/bash", "-c"]
+
+# Add conda channels required for the Morpheus dependencies
+RUN source activate morpheus-vuln-analysis \
+    && conda config --env --add channels conda-forge \
+    && conda config --env --add channels nvidia \
+    && conda config --env --add channels rapidsai \
+    && conda config --env --add channels pytorch
+
+RUN --mount=type=cache,id=conda_pkgs,target=/opt/conda/pkgs,sharing=locked \
+    source activate morpheus-vuln-analysis &&\
+    mamba install -y -c conda-forge tini=0.19
+
+WORKDIR /workspace_examples/
+
+# Copy custom entrypoint script
+# Copy just the conda env first to minimize cache busting
+COPY requirements.yaml /workspace_examples/requirements.yaml
+
+SHELL ["/bin/bash", "-c"]
+
+# Install dependencies
+RUN --mount=type=cache,id=pip_cache,target=/root/.cache/pip,sharing=locked \
+    --mount=type=cache,id=conda_pkgs,target=/opt/conda/pkgs,sharing=locked \
+    source activate morpheus-vuln-analysis &&\
+    mamba env update morpheus-vuln-analysis -f ./requirements.yaml
+
+# If any changes have been made from the base image, recopy the sources
+COPY . /workspace_examples/
+
+# Mark all git repos as safe to avoid git errors
+RUN git config --global --add safe.directory "*"
+
+ENTRYPOINT [ "/opt/conda/envs/morpheus-vuln-analysis/bin/tini", "--", "/workspace_examples/docker/scripts/entrypoint.sh"]
+
+# ===== Setup for development =====
+FROM base as runtime
+
+RUN --mount=type=cache,id=pip_cache,target=/root/.cache/pip,sharing=locked \
+    --mount=type=cache,id=conda_pkgs,target=/opt/conda/pkgs,sharing=locked \
+    source activate morpheus-vuln-analysis &&\
+    mamba install -y -c conda-forge \
+        ipywidgets \
+        jupyter_contrib_nbextensions \
+        # notebook v7 is incompatible with jupyter_contrib_nbextensions
+        notebook=6 &&\
+    jupyter contrib nbextension install --user &&\
+    pip install jupyterlab_nvdashboard==0.9
+
+CMD ["jupyter-lab", "--no-browser", "--allow-root", "--ip='*'", "--NotebookApp.token=''", "--NotebookApp.password=''"]