Commit ed5e2ce5 authored by jlaura's avatar jlaura Committed by GitHub
Browse files

Adds Socet GPF reads into plio (#18) 

* Adds prototype socet gpf read from @thareUSGS

* Adds test to gpf reader

* Adds length assertion and logic for dynamic cols

* removed static struct arr
parent 597e0fba

plio/examples/SocetGXP/InSightE08_XW.csv

0 → 100644
+161 −0
Original line number Diff line number Diff line 
point_id,stat,known,lat_y_North,long_X_East,ht,sigma0,sigma1,sigma2,res0,res1,res2

1,1,1,0.08538133869186999,2.38013146162178,-2697.2374469465,0.0,0.0,1.707214,16.348041000000002,-13.917623,-0.151001

2,1,1,0.08508542650082002,2.3808135855714703,-2702.0,0.0,0.0,1.0,15.983285999999998,-16.869508,0.103341

3,1,1,0.08626480095809,2.3870838392611,-2714.16003756809,0.0,0.0,3.828854,12.831839,-34.360639,-2.2058459999999998

4,1,1,0.08568717143105001,2.38669347579564,-2720.3873574332,0.0,0.0,2.06082,13.102864,-34.063651,0.334757

5,1,1,0.08077770259688,2.3838894311434102,-2692.00307359153,0.0,0.0,2.768034,15.876249,-23.172029000000002,-0.461974

6,1,1,0.08125893072767999,2.38445721412659,-2691.71435885471,0.0,0.0,1.707214,15.410701999999999,-25.944881,0.225806

7,1,1,0.07483240230363,2.3814261265746297,-2668.18002134863,0.0,0.0,1.353607,17.789075,-15.211119,0.087284

8,1,1,0.07443515640509,2.38212146862,-2664.7747769489906,0.0,0.0,1.353607,17.273365,-18.001185999999997,0.323137

9,1,1,0.07495055817805,2.3884619283655804,-2700.63760007568,0.0,0.0,1.707214,14.324904,-35.58345,-0.288152

10,1,1,0.07519371955078,2.38757259631679,-2694.18565786937,0.0,0.0,1.353607,14.771196,-33.010921,-0.08018600000000001

11,1,1,0.07010083277386,2.3849213916922003,-2668.62598527203,0.0,0.0,2.414427,15.933368,-22.780039000000002,-0.579354

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13,1,1,0.06563711957712,2.3825780897637503,-2652.6543697460706,0.0,0.0,1.707214,16.419539,-15.919385,0.250239

14,1,1,0.0664454678652,2.38304264645782,-2658.85707321604,0.0,0.0,1.353607,16.313481,-17.239438,0.11514

15,1,1,0.06649272348884999,2.38951682947442,-2692.0,0.0,0.0,1.0,12.517966,-36.540841,-0.063341

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D18_034427_1842_XN_04N223W_29,1,0,0.06701245416812,2.38319472448874,-2655.8936787285143,0.0,0.0,0.0,16.345939,-17.39285,202.351222

D18_034427_1842_XN_04N223W_30,1,0,0.06714286922356,2.38459540070318,-2666.2181217736006,0.0,0.0,0.0,15.56071,-21.543285,206.451357

D18_034427_1842_XN_04N223W_31,1,0,0.06699131624733,2.38537597452635,-2667.917382767097,0.0,0.0,0.0,15.129148999999998,-23.909211,208.666933

D18_034427_1842_XN_04N223W_32,1,0,0.0668897961665,2.38667024343657,-2676.4753153168867,0.0,0.0,0.0,14.271489,-27.786033000000003,212.56778599999998

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plio/examples/SocetGXP/InSightE08_XW.gpf

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plio/io/io_gpf.py

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import math

import numpy as np

import pandas as pd



def read_gpf(input_data):

    """

    Read a socet gpf file into a pandas data frame



    Parameters

    ----------

    input_file : str

                 path to the input data file



    Returns

    -------

    df : pd.DataFrame

         containing the gfp data with appropriate column names and indices

    """



    # Check that the number of rows is matching the expected number

    with open(input_data, 'r') as f:

        for i, l in enumerate(f):

            if i == 1:

                cnt = int(l)

            elif i == 2:

                col = l

                break



    # Mixed types requires read as unicode - let pandas soft convert

    d = np.genfromtxt(input_data, skip_header=3, dtype='unicode')

    d = d.reshape(-1, 12)



    #TODO: cols should be used to dynamically generate the column names



    df = pd.DataFrame(d, columns=['point_id', 'stat', 'known',

                              'lat_y_North', 'long_X_East','ht',

                              'sigma0', 'sigma1', 'sigma2',

                              'res0', 'res1', 'res2'])



    # Soft conversion of numeric types to numerics, allows str in first col for point_id

    df = df.apply(pd.to_numeric, errors='ignore')



    # Validate the read data with the header point count

    assert int(cnt) == len(df)



    return df

plio/io/tests/test_gpf.py

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import numpy as np

import pandas as pd

from pandas.util.testing import assert_frame_equal



from plio.io.io_gpf import read_gpf

from plio.examples import get_path



import pytest



@pytest.fixture

def insight_gpf():

    return get_path('InSightE08_XW.gpf')



@pytest.fixture()

def insight_expected():

    return pd.read_csv(get_path('InSightE08_XW.csv'))



@pytest.mark.parametrize('gpf, expected', [(insight_gpf(),insight_expected())])

def test_read_gfp(gpf, expected):

    df = read_gpf(gpf)

    assert_frame_equal(df, expected)