Shannon magsol

## running_mileage.py
# coding: utf-8
import numpy as np
import matplotlib.pyplot as plt

# Dates (by month: October 2019 through September 2023)
dates = ['Oct19', 'Nov19', 'Dec19', 'Jan20', 'Feb20', 'Mar20', 'Apr20', 'May20', 'Jun20', 'Jul20', 'Aug20', 'Sep20', 'Oct20', 'Nov20', 'Dec20', 'Jan21', 'Feb21', 'Mar21', 'Apr21', 'May21', 'Jun21', 'Jul21', 'Aug21', 'Sep21', 'Oct21', 'Nov21', 'Dec21', 'Jan22', 'Feb22', 'Mar22', 'Apr22', 'May22', 'Jun22', 'Jul22', 'Aug22', 'Sep22', 'Oct22', 'Nov22', 'Dec22', 'Jan23', 'Feb23', 'Mar23', 'Apr23', 'May23', 'Jun23', 'Jul23', 'Aug23', 'Sep23']

# Mileages (per month)
mileages = [153.49, 100.30, 101.19, 80.82, 139.45, 125.23, 101.14, 97.93, 82.42, 49.97, 0.0, 0.0, 23.76, 8.41, 5.68, 33.96, 14.08, 17.80, 30.97, 40.24, 16.40, 29.37, 23.41, 30.10, 35.08, 18.06, 18.79, 52.87, 33.71, 58.27, 21.67, 25.81, 14.68, 16.24, 38.55, 41.04, 50.35, 8.96, 15.77, 14.19, 48.73, 64.55, 73.92, 63.36, 60.10, 62.67, 85.22, 101.28]

## gist:eba6c40b33eb6cd31be8627cdc18d6b4

      
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                magsol
                / gist:eba6c40b33eb6cd31be8627cdc18d6b4
            
            
              Last active
              September 1, 2020 19:43
            
              
                Initial setup and configuration of the Kubernetes cluster
              
          
    https://linuxconfig.org/how-to-install-kubernetes-on-ubuntu-18-04-bionic-beaver-linux
Install NFS

Server

> apt-get install nfs-kernel-server 


## gist:f2961e0c8bfeee56339973773c8b6d8a
# converts vidfile.avi to vidfile.mov
# re-encodes video using h264 codec

# This is good for, e.g., creating a video to post to instagram.
ffmpeg -i vidfile.avi -c:v h264 vidfile.mov

# This is good for, e.g., creating a video to embed in PPTX.
ffmpeg -i vidfile.avi -pix_fmt yuv420p vidfile.mov

# see the list of available codecs

## choose_seeds.py
# This function was written as part of the analysis pipeline in
# Lu et al 2018, IEEE ISBI: https://arxiv.org/abs/1803.07534
#
# The purpose of this function was to convert the predicted mask
# of cilia into an empirical probability density function that we
# would then sample "seeds" from to extract patches of ciliary motion
# (with high probability; hence, the empirical PDF) to feed to the
# downstream Conv-LSTM for classification. The reason we didn't
# just uniformly sample from the masked areas of cilia was to try
# and minimize uncertainty in the mask edges (hence, the distance

## opencv-cuda.py
#!/opt/python/bin/python
# Installs a GPU-enabled OpenCV from the conda-forge feedstock.
# Assumes you already have Python 3 installed and the conda-forge channel on.

import argparse
import os.path
import subprocess
import sys

# These are the options we want to make sure are set to the values listed here.

## animated_rotated_3dtrajectory.py
import argparse
import matplotlib.pyplot as plot
from matplotlib import animation
from mpl_toolkits.mplot3d.axes3d import Axes3D
import numpy as np
import scipy.io
import ar.ar as AR

if __name__ == "__main__":
    parser = argparse.ArgumentParser(description = 'Cilia AR Subspace Plotting',

## bluedata-worker-cleanup-and-reset.sh
# Register each worker.
./bootstrap-uga-general.sh

# Make sure each worker is subscribed to the RHEL channels:
# - RHEL Server Optional
# - RHEL Server Supplementary
# - RHN Tools for RHEL

# Run on each worker.
yum -y update

## aws-dash.md

      
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                magsol
                /  aws-dash.md
            
            
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              January 29, 2019 08:47
            
              
                Attempts to get the Amazon Dash button working with Hue lights.
              
          
    AWS DashHue

Interfaces the AWS Dash button with the Hue lights.
https://familab.org/2016/02/hacking-the-amazon-dash-button-to-make-a-simple-cheap-iot-place-anywhere-networked-button-3/

  
## python-packages.md

      
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                magsol
                /  python-packages.md
            
            
              Last active
              May 23, 2017 18:47
            
              
                Python packages I use.
              
          
    DEPRECATED. Use this repo instead: https://github.com/quinngroup/python-packages
This is a list of all the Python packages I like to use.

  
## feret.py
import argparse
import bz2
import os

if __name__ == "__main__":
    parser = argparse.ArgumentParser(description = 'FERET Parser',
        epilog = 'lol moar p1cz', add_help = 'How to use',
        prog = 'python feret.py <args>')

    # Required parameters.
	# coding: utf-8
	import numpy as np
	import matplotlib.pyplot as plt

	# Dates (by month: October 2019 through September 2023)
	dates = ['Oct19', 'Nov19', 'Dec19', 'Jan20', 'Feb20', 'Mar20', 'Apr20', 'May20', 'Jun20', 'Jul20', 'Aug20', 'Sep20', 'Oct20', 'Nov20', 'Dec20', 'Jan21', 'Feb21', 'Mar21', 'Apr21', 'May21', 'Jun21', 'Jul21', 'Aug21', 'Sep21', 'Oct21', 'Nov21', 'Dec21', 'Jan22', 'Feb22', 'Mar22', 'Apr22', 'May22', 'Jun22', 'Jul22', 'Aug22', 'Sep22', 'Oct22', 'Nov22', 'Dec22', 'Jan23', 'Feb23', 'Mar23', 'Apr23', 'May23', 'Jun23', 'Jul23', 'Aug23', 'Sep23']

	# Mileages (per month)
	mileages = [153.49, 100.30, 101.19, 80.82, 139.45, 125.23, 101.14, 97.93, 82.42, 49.97, 0.0, 0.0, 23.76, 8.41, 5.68, 33.96, 14.08, 17.80, 30.97, 40.24, 16.40, 29.37, 23.41, 30.10, 35.08, 18.06, 18.79, 52.87, 33.71, 58.27, 21.67, 25.81, 14.68, 16.24, 38.55, 41.04, 50.35, 8.96, 15.77, 14.19, 48.73, 64.55, 73.92, 63.36, 60.10, 62.67, 85.22, 101.28]
	# converts vidfile.avi to vidfile.mov
	# re-encodes video using h264 codec

	# This is good for, e.g., creating a video to post to instagram.
	ffmpeg -i vidfile.avi -c:v h264 vidfile.mov

	# This is good for, e.g., creating a video to embed in PPTX.
	ffmpeg -i vidfile.avi -pix_fmt yuv420p vidfile.mov

	# see the list of available codecs
	# This function was written as part of the analysis pipeline in
	# Lu et al 2018, IEEE ISBI: https://arxiv.org/abs/1803.07534
	#
	# The purpose of this function was to convert the predicted mask
	# of cilia into an empirical probability density function that we
	# would then sample "seeds" from to extract patches of ciliary motion
	# (with high probability; hence, the empirical PDF) to feed to the
	# downstream Conv-LSTM for classification. The reason we didn't
	# just uniformly sample from the masked areas of cilia was to try
	# and minimize uncertainty in the mask edges (hence, the distance
	#!/opt/python/bin/python
	# Installs a GPU-enabled OpenCV from the conda-forge feedstock.
	# Assumes you already have Python 3 installed and the conda-forge channel on.

	import argparse
	import os.path
	import subprocess
	import sys

	# These are the options we want to make sure are set to the values listed here.
	import argparse
	import matplotlib.pyplot as plot
	from matplotlib import animation
	from mpl_toolkits.mplot3d.axes3d import Axes3D
	import numpy as np
	import scipy.io
	import ar.ar as AR

	if __name__ == "__main__":
	parser = argparse.ArgumentParser(description = 'Cilia AR Subspace Plotting',
	# Register each worker.
	./bootstrap-uga-general.sh

	# Make sure each worker is subscribed to the RHEL channels:
	# - RHEL Server Optional
	# - RHEL Server Supplementary
	# - RHN Tools for RHEL

	# Run on each worker.
	yum -y update
	import argparse
	import bz2
	import os

	if __name__ == "__main__":
	parser = argparse.ArgumentParser(description = 'FERET Parser',
	epilog = 'lol moar p1cz', add_help = 'How to use',
	prog = 'python feret.py <args>')

	# Required parameters.