Additional Software for Challenge Sandbox Evaluation

This directory contains software that is used for evaluating entries in the PhysioNet/Computing in Cardiology Challenge. These packages are designed to be installed on a Debian GNU/Linux system, so that they can be used as part of a Challenge entry. (See Sandbox Evaluation of Entries in PhysioNet/Computing in Cardiology Challenges for more details of this process.) These packages include:

Although these packages may be installed on any Debian system, they are primarily intended for Challenge use, and have not been tested outside of that context. Documentation may be incomplete; features may be missing; configuration may be non-standard. Packages are built only for the amd64 architecture and may not work on other architectures.

Example package lists

In order to use packages from this repository as part of a Challenge entry, you must specify the package names, including version numbers, in your list of dependencies. This is done in order to permit different entries to use and require different versions of the package. The following examples can be copied and pasted into your entry's dependencies.txt file.

Note that many of these packages require a BLAS library, of which several are available in Debian. We suggest using libopenblas-base, as this is likely to have the best "out-of-the-box" performance.

Package index

Package Version Description
bazel0.4.4-dist-0+pn1Bazel is a tool that automates software builds and tests.
caffe-cpu1.0.0~rc4-1~pn1Fast, open framework for Deep Learning (Meta)
caffe-doc1.0.0~rc4-1~pn1Caffe's doxygen docs and examples
caffe-tools-cpu1.0.0~rc4-1~pn1Tools for fast, open framework for Deep Learning (CPU_ONLY)
ecgpuwave1.3.3-0~pn1QRS detector and waveform limit locator
islandhack0.1-0+pn1run a program with simulated WWW access
libcaffe-cpu-dev1.0.0~rc4-1~pn1development files for Caffe (CPU_ONLY)
libcaffe-cpu11.0.0~rc4-1~pn1library of Caffe, deep learning framework (CPU_ONLY)
libprotobuf-dev3.2.0-0~pn1protocol buffers C++ library (development files)
libprotobuf-java3.2.0-0~pn1Java bindings for protocol buffers
libprotobuf-lite103.2.0-0~pn1protocol buffers C++ library (lite version)
libprotobuf103.2.0-0~pn1protocol buffers C++ library
libprotoc-dev3.2.0-0~pn1protocol buffers compiler library (development files)
libprotoc103.2.0-0~pn1protocol buffers compiler library
libwfdb-dev10.5.25~pre2-0~pn1WFDB developer's toolkit
libwfdb1010.5.25~pre2-0~pn1Waveform Database library
protobuf-compiler3.2.0-0~pn1compiler for protocol buffer definition files
pypy-six1.10.0-3Python 2 and 3 compatibility library (PyPy interface)
python-decorator4.0.11-1simplify usage of Python decorators by programmers
python-funcsigs1.0.2-3~bpo8+1function signatures from PEP362 - Python 2.7
python-funcsigs-doc1.0.2-3~bpo8+1function signatures from PEP362 - doc
python-joblib0.10.3+git55-g660fe5d-1tools to provide lightweight pipelining in Python
python-keras2.0.2+git20170403+64d24215-0~pn1high-level framework for deep learning (Python 2)
python-mock2.0.0-3~bpo8+1Mocking and Testing Library
python-mock-doc2.0.0-3~bpo8+1Mocking and Testing Library (Documentation)
python-nose-parameterized0.6.0-0~pn0decorator for parameterized testing with Nose - Python 2.x
python-numpy1:1.12.0-2~pn0Numerical Python adds a fast array facility to the Python language
python-numpy-dbg1:1.12.0-2~pn0Fast array facility to the Python language (debug extension)
python-pbr1.8.0-4.1~bpo8+1inject useful and sensible default behaviors into setuptools - Python 2.x
python-pbr-doc1.8.0-4.1~bpo8+1inject useful and sensible default behaviors into setuptools - doc
python-protobuf3.2.0-0~pn1Python bindings for protocol buffers
python-scikits-learn0.18-5~pn0transitional compatibility package for scikits.learn -> sklearn migration
python-scipy0.18.1-2~pn1scientific tools for Python
python-scipy-dbg0.18.1-2~pn1scientific tools for Python - debugging symbols
python-scipy-doc0.18.1-2~pn1scientific library for Python - documentation
python-six1.10.0-3Python 2 and 3 compatibility library (Python 2 interface)
python-sklearn0.18-5~pn0Python modules for machine learning and data mining
python-sklearn-doc0.18-5~pn0documentation and examples for scikit-learn
python-sklearn-lib0.18-5~pn0low-level implementations and bindings for scikit-learn
python-tensorflow1.0.0-0~pn1Computation using data flow graphs for scalable machine learning
python-theano0.8.2-6CPU/GPU math expression compiler for Python
0.9.0-0~pn1CPU/GPU math expression compiler for Python
python-wheel0.29.0-2built-package format for Python
python-wheel-common0.29.0-2built-package format for Python
python-xgboost0.6+git20160810-0~pn1scalable, distributed gradient boosting library (Python 2)
python3-caffe-cpu1.0.0~rc4-1~pn1Python3 interface of Caffe (CPU_ONLY)
python3-decorator4.0.11-1simplify usage of Python decorators by programmers
python3-funcsigs1.0.2-3~bpo8+1function signatures from PEP362 - Python 3.x
python3-joblib0.10.3+git55-g660fe5d-1tools to provide lightweight pipelining in Python
python3-keras2.0.2+git20170403+64d24215-0~pn1high-level framework for deep learning (Python 3)
python3-mock2.0.0-3~bpo8+1Mocking and Testing Library (Python3 version)
python3-nose-parameterized0.6.0-0~pn0Decorator for parameterized testing with Nose - Python 3.x
python3-numpy1:1.12.0-2~pn0Fast array facility to the Python 3 language
python3-numpy-dbg1:1.12.0-2~pn0Fast array facility to the Python 3 language (debug extension)
python3-pbr1.8.0-4.1~bpo8+1inject useful and sensible default behaviors into setuptools - Python 3.x
python3-protobuf3.2.0-0~pn1Python 3 bindings for protocol buffers
python3-scipy0.18.1-2~pn1scientific tools for Python 3
python3-scipy-dbg0.18.1-2~pn1scientific tools for Python 3 - debugging symbols
python3-six1.10.0-3Python 2 and 3 compatibility library (Python 3 interface)
python3-sklearn0.18-5~pn0Python modules for machine learning and data mining
python3-sklearn-lib0.18-5~pn0low-level implementations and bindings for scikit-learn - Python 3
python3-tensorflow1.0.0-0~pn1Computation using data flow graphs for scalable machine learning
python3-theano0.8.2-6CPU/GPU math expression compiler for Python 3
0.9.0-0~pn1CPU/GPU math expression compiler for Python 3
python3-wheel0.29.0-2built-package format for Python
python3-xgboost0.6+git20160810-0~pn1scalable, distributed gradient boosting library (Python 3)
theano-doc0.8.2-6CPU/GPU math expression compiler for Python (docs)
wfdb10.5.25~pre2-0~pn1Waveform Database Software Package
wfdb-app-toolbox0.9.9+src-0~pn1WFDB Toolbox for MATLAB and Octave
Icon  Name                    Last modified      Size  Description
[PARENTDIR] Parent Directory - [DIR] dists/ 2017-04-05 18:22 - [DIR] pool/ 2017-04-05 18:22 -

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Updated Friday, 28 October 2016 at 16:58 EDT

PhysioNet is supported by the National Institute of General Medical Sciences (NIGMS) and the National Institute of Biomedical Imaging and Bioengineering (NIBIB) under NIH grant number 2R01GM104987-09.