gistfile1.txt

#!/bin/bash

set -- $(iostat)
read -d '' script <<"EOF"

import numpy as np
import numpy
import scipy.signal

def moving_average(ins,outs):
    y = ins["Y"]
    avg = ins["Avg"]
    median = numpy.median(y)
    stddev = numpy.std(y)
    print ("median", median)
    print ("stddev", stddev)

    outs = np.where( abs(y-median) > 3*stddev)
    for i in outs:
        print y[i]
    print outs
    return True

EOF

read -d '' pipeline <<"EOF"
{
  "pipeline":[
    {
    "type" : "readers.las",
    "filename":"/data/sortme.las"
    },
    {
      "type":"filters.ferry",
      "dimensions":"Y = Avg"
    },
    {
    "type" : "filters.programmable",
    "function":"moving_average",
    "module":"anything",
    "script":"$script"
    }  ]
}
EOF

# This works, but all the " characters get stripped out
pipeline2=$(eval echo $pipeline)
echo $pipeline2

container=$(docker run -it -d -v `pwd`:/data pdal/pdal:1.5)

echo "conainerid: " $container

echo $pipeline | docker exec -i $container pdal pipeline -i STDIN
docker kill $container