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#!/bin/bash #PBS -N condatest #PBS -m abe #PBS -M YourEMAIL@griffith.edu.au #PBS -l select=1:ncpus=1:mem=4gb,walltime=10:00:00 cd $PBS_O_WORKDIR module load anaconda3/2019.07py3 source activate bioinformatics trinity <trinityinput> |
Sample python code to write out a plot
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vi plot.py
>>>>>>>>>>>>>>>>>
import matplotlib.pyplot as plt
import numpy as np
np.random.seed(19680801)
data = np.random.randn(2, 100)
fig, axs = plt.subplots(2, 2, figsize=(5, 5))
axs[0, 0].hist(data[0])
axs[1, 0].scatter(data[0], data[1])
axs[0, 1].plot(data[0], data[1])
axs[1, 1].hist2d(data[0], data[1])
plt.show()
plt.savefig('test')
>>>>>>>>>>>>>>>>>>
module load anaconda3/2022.10
source activate yourenv #this should have the matlibplot packages and others.
python plot.py would generate a plot named test.png
Reference: https://matplotlib.org/3.4.3/tutorials/introductory/sample_plots.html
Sample codes are here:
https://matplotlib.org/3.4.3/_downloads/55a714c8a6e4dde456b09326202fe492/sample_plots.py
https://matplotlib.org/3.4.3/_downloads/003118d8eb1e7df55671bcdf18bfac3c/sample_plots.ipynb |
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