Revision 6b2c8b3debe63c3fd0d4d7d10f7d78592fc39e82 authored by Alex Nitz on 04 December 2020, 11:48:05 UTC, committed by GitHub on 04 December 2020, 11:48:05 UTC
* re-enable pycbc live test

* try to store docs as artifact

* only store artifact on python 38

* fixes

* fix

* update

* test

* fix

* update

* test

* test

* test

* add deploy action

* test

* t1

* test

* test

* test

* pypi upload

* test

* test

* test

* now that deploy seems to work, only do so on master

* require tests to pass to deploy

* ws

* gh pages options

* keep same old names

* test

* test

* test

* try this too

* do this

* fix

* ok, finished
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test_psd.py
# Copyright (C) 2012  Tito Dal Canton, Josh Willis
#
# This program is free software; you can redistribute it and/or modify it
# under the terms of the GNU General Public License as published by the
# Free Software Foundation; either version 3 of the License, or (at your
# option) any later version.
#
# This program is distributed in the hope that it will be useful, but
# WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the GNU General
# Public License for more details.
#
# You should have received a copy of the GNU General Public License along
# with this program; if not, write to the Free Software Foundation, Inc.,
# 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301, USA.

#
# =============================================================================
#
#                                   Preamble
#
# =============================================================================
#
'''
These are the unittests for the pycbc PSD module.
'''
from __future__ import division
import sys
import os
import tempfile
import pycbc
import pycbc.psd
from pycbc.types import TimeSeries, FrequencySeries
from pycbc.fft import ifft
from pycbc.fft.fftw import set_measure_level
import unittest
import numpy
from utils import parse_args_all_schemes, simple_exit
set_measure_level(0)

_scheme, _context = parse_args_all_schemes("PSD")

class TestPSD(unittest.TestCase):
    def setUp(self):
        self.scheme = _scheme
        self.context = _context
        self.psd_len = 1024
        self.psd_delta_f = 0.1
        self.psd_low_freq_cutoff = 10.
        # generate 1/f noise for testing PSD estimation
        noise_size = 524288
        sample_freq = 4096.
        delta_f = sample_freq / noise_size
        numpy.random.seed(132435)
        noise = numpy.random.normal(loc=0, scale=1, size=noise_size//2+1) + \
            1j * numpy.random.normal(loc=0, scale=1, size=noise_size//2+1)
        noise_model = 1. / numpy.linspace(1., 100., noise_size // 2 + 1)
        noise *= noise_model / numpy.sqrt(delta_f) / 2
        noise[0] = noise[0].real
        noise_fs = FrequencySeries(noise, delta_f=delta_f)
        self.noise = TimeSeries(numpy.zeros(noise_size), delta_t=1./sample_freq)
        ifft(noise_fs, self.noise)

    def test_analytical(self):
        """Basic test of lalsimulation's analytical noise PSDs"""
        with self.context:
            psd_list = pycbc.psd.analytical.get_lalsim_psd_list()
            self.assertTrue(psd_list)
            for psd_name in psd_list:
                psd = pycbc.psd.analytical.from_string(psd_name, self.psd_len,
                                    self.psd_delta_f, self.psd_low_freq_cutoff)
                psd_min = psd.min()
                self.assertTrue(psd_min >= 0,
                                          msg=(psd_name + ': negative values'))
                self.assertTrue(psd.min() < 1e-40,
                                msg=(psd_name + ': unreasonably high minimum'))

    def test_read(self):
        """Test reading PSDs from text files"""
        test_data = numpy.zeros((self.psd_len, 2))
        test_data[:, 0] = numpy.linspace(0.,
                           (self.psd_len - 1) * self.psd_delta_f, self.psd_len)
        test_data[:, 1] = numpy.sqrt(test_data[:, 0])
        file_desc, file_name = tempfile.mkstemp()
        os.close(file_desc)
        numpy.savetxt(file_name, test_data)
        test_data[test_data[:, 0] < self.psd_low_freq_cutoff, 1] = 0.
        with self.context:
            psd = pycbc.psd.read.from_txt(file_name, self.psd_len,
                                    self.psd_delta_f, self.psd_low_freq_cutoff, is_asd_file=True)
            self.assertAlmostEqual(abs(psd - test_data[:, 1] ** 2).max(), 0)
        os.unlink(file_name)

    def test_estimate_welch(self):
        """Test estimating PSDs from data using Welch's method"""
        for seg_len in (2048, 4096, 8192):
            noise_model = (numpy.linspace(1., 100., seg_len//2 + 1)) ** (-2)
            for seg_stride in (seg_len, seg_len//2):
                for method in ('mean', 'median', 'median-mean'):
                    with self.context:
                        psd = pycbc.psd.welch(self.noise, seg_len=seg_len, \
                            seg_stride=seg_stride, avg_method=method)
                        error = (psd.numpy() - noise_model) / noise_model
                    err_rms = numpy.sqrt(numpy.mean(error ** 2))
                    self.assertTrue(err_rms < 0.2,
                        msg='seg_len=%d seg_stride=%d method=%s -> rms=%.3f' % \
                        (seg_len, seg_stride, method, err_rms))

    def test_truncation(self):
        """Test inverse PSD truncation"""
        for seg_len in (2048, 4096, 8192):
            noise_model = (numpy.linspace(1., 100., seg_len//2 + 1)) ** (-2)
            for max_len in (1024, 512, 256):
                with self.context:
                    psd = pycbc.psd.welch(self.noise, seg_len=seg_len, \
                                          seg_stride=seg_len//2, avg_method='mean')
                    psd_trunc = pycbc.psd.inverse_spectrum_truncation(
                            psd, max_len,
                            low_frequency_cutoff=self.psd_low_freq_cutoff)
                    freq = psd.sample_frequencies.numpy()
                    error = (psd.numpy() - noise_model) / noise_model
                error = error[freq > self.psd_low_freq_cutoff]
                err_rms = numpy.sqrt(numpy.mean(error ** 2))
                self.assertTrue(err_rms < 0.1,
                                msg='seg_len=%d max_len=%d -> rms=%.3f' \
                                % (seg_len, max_len, err_rms))

suite = unittest.TestSuite()
suite.addTest(unittest.TestLoader().loadTestsFromTestCase(TestPSD))

if __name__ == '__main__':
    results = unittest.TextTestRunner(verbosity=2).run(suite)
    simple_exit(results)
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