johannah

This is documentation for installing MB-System-r2279 on Ubuntu 14.04 as of Nov 2016. Although documentation for mb-system has improved dramatically over the past few years, it can still be difficult. In particular, I have not found step 1.4 in the documentation and missing this step will result in being unable to use gmt shared libraries such as "gmt mbcontour" which is necessary for producing contour lines in maps.

##1) Install GMT 5.1.2 I am using directions from Andrew at: http://andrewjmoodie.com/2014/12/installing-the-generic-mapping-tools-5-gmt-5-1-x-on-ubuntu-linux/ I've added step 1.4 to get this to load shared libraries from mb-system.

##1.1) Install relvent dependencies

johannah

"""
BST License 
# Description
File to create geotiffs depends on gdal installed on system. Can be used under two modes:
    1) Download a satellite overview screenshot from google maps around a center
    coordinate. Can give zoom (max is usually 20, but depends on area - will return
    an image with error message if zoom is too high) and image size
    (defaults to max 640x640)
    2) Convert an existing image into a geotiff by giving UL and LR corner

johannah

# to get mujoco-py to install with headless rendering without sudo access

##############################
# 1) first download and install mujoco according to instructions from https://github.com/deepmind/mujoco/

##############################
# 2) add environment variables to your bashrc
# importantly, this should be done before installing mujoco-py
export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/home/$USER/.mujoco/mujoco210/bin
export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/usr/lib/nvidia

johannah

'''
This script saves each topic in a bagfile as a csv.
Accepts a filename as an optional argument. Operates on all bagfiles in current directory if no argument provided

Originally Written by Nick Speal in May 2013 at McGill University's Aerospace Mechatronics Laboratory

Modified by J.Hansen in 2021
'''

import rosbag, sys, csv

johannah

import numpy as np
import os
import sys

# hours_per_time_step should be greater than 1       
hours_per_step = 2

class PainModel():
    def __init__(self, seed):
        # pain -1 is bad

johannah

# from KK
from copy import deepcopy
import time
import os
import torch 
import torch.nn as nn
from torch.nn.utils.clip_grad import clip_grad_norm
import torch.nn.functional as F
import torch.optim as optim
from torch.autograd import Variable

johannah

# from KK
import torch 
from torch.autograd import Variable
import numpy as np
import matplotlib.pyplot as plt
import torch.nn.init as init
from IPython import embed

dtype = torch.FloatTensor
input_size, hidden_size, output_size = 1,128,1

johannah

import os, sys
from glob import glob
from IPython import embed
from subprocess import call
# example <a href='catalog.html?dataset=NOAA/CBOFS/MODELS/201710/nos.cbofs.stations.nowcast.20171031.t18z.nc'><tt>nos.cbofs.stations.nowcast.20171031.t18z.nc</tt></a></td>^M
fpaths = glob('/localdata/jhansen/thredds/opendap.co-ops.nos.noaa.gov/thredds/catalog/NOAA/*')
output = '/localdata/jhansen/thredds/ncfiles'
fileServer = 'https://opendap.co-ops.nos.noaa.gov/thredds/fileServer/'
for station in fpaths:
    # only get stations which have fairly open oceans

johannah

name: py-ros
channels:
- defaults
dependencies:
- backports=1.0=py27h63c9359_1
- backports.shutil_get_terminal_size=1.0.0=py27h5bc021e_2
- ca-certificates=2017.08.26=h1d4fec5_0
- certifi=2017.7.27.1=py27h9ceb091_0
- decorator=4.1.2=py27h1544723_0
- enum34=1.1.6=py27h99a27e9_1

johannah

import numpy
import time
import matplotlib.pyplot as plt
import numpy as np
from copy import deepcopy
import os, sys
from scipy.misc import face
import GPy
from skimage.transform import resize
from skimage.filters import gaussian_filter