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%pylab inline
import hyperspy.api as hs
from statsmodels.nonparametric.smoothers_lowess import lowess

def DespikeEELS(spec, m=3., interp_outliers=True):
    # Make a copy of the data
    E = spec.axes_manager[0].axis.copy()
    I = spec.data.copy()
    
    # Lowess smooth.

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from skimage.exposure import rescale_intensity, equalize_hist
def MakeRGBFromMaps(R,G,B, bits=16):
    MaxPixelVal = (2**bits)-1
    
    # Make a Signal2D from the three images and copy over the metadata.
    x = hs.stack([R,G,B])
    x = hs.signals.Signal2D(x).T
    x.metadata = R.metadata
    x.original_metadata = R.original_metadata
    

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" Vundle install
set nocompatible              " be iMproved, required
filetype off                  " required

" set the runtime path to include Vundle and initialize
set rtp+=~/.vim/bundle/Vundle.vim
call vundle#begin()

" let Vundle manage Vundle, required
Plugin 'VundleVim/Vundle.vim'

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import numpy as np
import sys

if len(sys.argv) < 3:
    print('Command line format:\npython 2bin.py stackin.npy stackout.npy')
    sys.exit()

s = np.load(sys.argv[1])
if len(s.shape) != 3:
    print('Input npy stack needs to have a shape like (x, y, frames).')

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#.tmux.conf
# Make mouse useful in copy mode
set -g mode-mouse on
set -g mouse-select-window on
set -g mouse-select-pane on
set -g mouse-resize-pane on

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#!/bin/bash

tmux new-session -d -s ZackG
tmux new-window -t ZackG:1 -n 'lrc'
tmux send-keys "watch 'sacct --format JobID,jobname%20,NCPUS,State,Submit,AveRSS,CPUTime,Elapsed,TimeLimit,NodeList | tac'" C-m
tmux split-window -h -t lrc
tmux select-pane -t 0
tmux split-window -v -t lrc
tmux select-pane -t 2
tmux attach-session -t ZackG

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