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# -*- coding: utf-8 -*-
#
# Copyright (c) 2023, the cclib development team
#
# This file is part of cclib (http://cclib.github.io) and is distributed under
# the terms of the BSD 3-Clause License.
"""Test single point time-dependent logfiles in cclib"""
import os
import unittest
import numpy
from skip import skipForParser
from skip import skipForLogfile
__filedir__ = os.path.realpath(os.path.dirname(__file__))
class GenericTDTest(unittest.TestCase):
"""Generic time-dependent HF/DFT unittest"""
number = 5
expected_l_max = 41000
expected_f_max = 0.67
symmetries = [
"Singlet-Bu",
"Singlet-Bu",
"Singlet-Ag",
"Singlet-Bu",
"Singlet-Ag",
]
sumofsec = 1.0
method = "TD-DFT"
@skipForParser('ADF', 'excited_states_method not yet implemented')
@skipForParser('DALTON', 'excited_states_method not yet implemented')
@skipForParser('FChk', 'excited_states_method not yet implemented')
@skipForParser('GAMESS', 'excited_states_method not yet implemented')
@skipForParser('GAMESSUK', 'excited_states_method not yet implemented')
@skipForParser('Jaguar', 'excited_states_method not yet implemented')
@skipForParser('NWChem', 'excited_states_method not yet implemented')
@skipForParser('QChem', 'excited_states_method not yet implemented')
def testmetadata(self):
"""Did we parse an excited states method?"""
assert self.data.metadata['excited_states_method'] == self.method
@skipForParser('Molcas','The parser is still being developed so we skip this test')
@skipForLogfile('Turbomole/basicTurbomole7.4/CO_cc2_TD_trip', 'Oscillator strengths are not available for Turbomole triplets using ricc2 but are required for testenergies()')
def testenergies(self):
"""Is the l_max reasonable?"""
assert len(self.data.etenergies) == self.number
# Note that if all oscillator strengths are zero (like for triplets)
# then this will simply pick out the first energy.
idx_lambdamax = numpy.argmax(self.data.etoscs)
assert abs(self.data.etenergies[idx_lambdamax] - self.expected_l_max) < 5000
@skipForParser('Molcas','The parser is still being developed so we skip this test')
@skipForLogfile("Turbomole/basicTurbomole7.4/CO_cc2_TD_trip", "Oscillator strengths are not available for triplets with Turbomole's ricc2")
def testoscs(self):
"""Is the maximum of etoscs in the right range?"""
assert len(self.data.etoscs) == self.number
assert abs(max(self.data.etoscs) - self.expected_f_max) < 0.1
@skipForParser('FChk','The parser is still being developed so we skip this test')
@skipForParser('Molcas','The parser is still being developed so we skip this test')
@skipForLogfile("Gaussian/basicGaussian16/dvb_eomccsd.log", "Transitions are not yet parsed for EOM-CCSD")
def testsecs(self):
"""Is the sum of etsecs close to 1?"""
assert len(self.data.etsecs) == self.number
lowestEtrans = self.data.etsecs[numpy.argmin(self.data.etenergies)]
sumofsec = sum([z*z for (x, y, z) in lowestEtrans])
assert abs(sumofsec - self.sumofsec) < 0.16
@skipForParser('FChk', 'This is true for calculations without symmetry, but not with?')
@skipForParser('DALTON', 'This is true for calculations without symmetry, but not with?')
@skipForParser('Molcas','The parser is still being developed so we skip this test')
@skipForLogfile("Gaussian/basicGaussian16/dvb_eomccsd.log", "Transitions are not yet parsed for EOM-CCSD")
def testsecs_transition(self):
"""Is the lowest E transition from the HOMO or to the LUMO?"""
lowestEtrans = self.data.etsecs[numpy.argmin(self.data.etenergies)]
t = list(reversed(sorted([(c*c, s, e) for (s, e, c) in lowestEtrans])))
assert t[0][1][0] == self.data.homos[0] or \
t[0][2][0] == self.data.homos[0] + 1
@skipForParser('Molcas','The parser is still being developed so we skip this test')
@skipForLogfile("FChk/basicQChem5.4", "etsyms are not yet implemented")
@skipForLogfile("ORCA/basicORCA5.0/dvb_adc2.log", "etsyms are not available for this method")
@skipForLogfile("ORCA/basicORCA5.0/dvb_eom_ccsd.log", "etsyms are not available for this method")
@skipForLogfile("ORCA/basicORCA5.0/dvb_pno_eom_ccsd.log", "etsyms are not available for this method")
def testsymsnumber(self):
"""Is the length of etsyms correct?"""
assert len(self.data.etsyms) == self.number
@skipForParser('ADF', 'etrotats are not yet implemented')
@skipForParser('DALTON', 'etsyms are not yet implemented')
@skipForParser('FChk', 'etsyms are not yet implemented')
@skipForParser('GAMESS', 'etsyms are not yet implemented')
@skipForParser('GAMESSUK', 'etsyms are not yet implemented')
@skipForParser('Jaguar', 'etsyms are not yet implemented')
@skipForParser('NWChem', 'etsyms are not yet implemented')
@skipForParser('QChem', 'etsyms are not yet implemented')
@skipForLogfile("ORCA/basicORCA4.2", "etsyms are only available in ORCA >= 5.0")
@skipForLogfile("ORCA/basicORCA4.1", "etsyms are only available in ORCA >= 5.0")
@skipForLogfile("Gaussian/basicGaussian09", "symmetry is missing for this log file")
@skipForLogfile("FChk/basicQChem5.4", "etsyms are not yet implemented")
def testsyms(self):
"""Are the values of etsyms correct?"""
assert self.data.etsyms == self.symmetries
@skipForParser('ADF', 'etrotats are not yet implemented')
@skipForParser('DALTON', 'etrotats are not yet implemented')
@skipForParser('FChk', 'etrotats are not yet implemented')
@skipForParser('GAMESS', 'etrotats are not yet implemented')
@skipForParser('GAMESSUK', 'etrotats are not yet implemented')
@skipForParser('Jaguar', 'etrotats are not yet implemented')
@skipForParser('NWChem', 'etrotats are not yet implemented')
@skipForParser('QChem', 'Q-Chem cannot calculate rotatory strengths')
@skipForLogfile("FChk/basicQChem5.4", "Q-Chem cannot calculate rotatory strengths")
@skipForLogfile("FChk/basicGaussian09", "etrotats are not available in fchk, only the main logfile")
@skipForLogfile("FChk/basicGaussian16", "etrotats are not available in fchk, only the main logfile")
@skipForLogfile("Turbomole/basicTurbomole7.4/CO_cc2_TD", "Rotatory strengths are not currently available for ricc2")
@skipForLogfile("Turbomole/basicTurbomole7.4/CO_adc2_TD", "Rotatory strengths are not currently available for ricc2")
def testrotatsnumber(self):
"""Is the length of etrotats correct?"""
assert len(self.data.etrotats) == self.number
@skipForParser('ADF', 'optstate is not yet implemented')
@skipForParser('DALTON', 'optstate are not yet implemented')
@skipForParser('FChk', 'optstate are not yet implemented')
@skipForParser('GAMESS', 'optstate are not yet implemented')
@skipForParser('GAMESSUK', 'optstate are not yet implemented')
@skipForParser('Jaguar', 'optstate are not yet implemented')
@skipForParser('NWChem', 'optstate are not yet implemented')
@skipForParser('ORCA', 'optstate are not yet implemented')
@skipForParser('QChem', 'optstate are not yet implemented')
@skipForParser('Turbomole', 'optstate are not yet implemented')
def testoptstate(self):
# All our examples have a default state-of-interest of 1 (index 0).
assert self.data.metadata['opt_state'] == 0
class ADFTDDFTTest(GenericTDTest):
"""Customized time-dependent DFT unittest"""
number = 5
def testsecs(self):
"""Is the sum of etsecs close to 1?"""
assert len(self.data.etsecs) == self.number
lowestEtrans = self.data.etsecs[1]
#ADF squares the etsecs
sumofsec = sum([z for (x, y, z) in lowestEtrans])
assert abs(sumofsec - 1.0) < 0.16
class DALTONTDTest(GenericTDTest):
"""Customized time-dependent HF/DFT unittest"""
number = 20
class GaussianTDDFTTest(GenericTDTest):
"""Customized time-dependent HF/DFT unittest"""
expected_l_max = 48000
def testetdipsshape(self):
"""Is the shape of etdips correct?"""
assert numpy.shape(self.data.etdips) == (self.number, 3)
def testetveldipsshape(self):
"""Is the shape of etveldips correct?"""
assert numpy.shape(self.data.etveldips) == (self.number, 3)
def testetmagdipsshape(self):
"""Is the shape of etmagdips correct?"""
assert numpy.shape(self.data.etmagdips) == (self.number, 3)
class GAMESSUSTDDFTTest(GenericTDTest):
"""Customized time-dependent HF/DFT unittest"""
number = 10
class JaguarTDDFTTest(GenericTDTest):
"""Customized time-dependent HF/DFT unittest"""
expected_l_max = 48000
expected_f_max = 1.2
class OrcaTDDFTTest(GenericTDTest):
"""Customized time-dependent HF/DFT unittest"""
number = 10
expected_l_max = 48000
symmetries = [
"Triplet-Bu",
"Triplet-Ag",
"Triplet-Bu",
"Triplet-Bu",
"Triplet-Bu",
"Singlet-Bu",
"Singlet-Bu",
"Singlet-Ag",
"Singlet-Bu",
"Singlet-Ag",
]
method = "TDA"
def testoscs(self):
"""Is the maximum of etoscs in the right range?"""
assert len(self.data.etoscs) == self.number
assert abs(max(self.data.etoscs) - 1.17) < 0.01
class QChemTDDFTTest(GenericTDTest):
"""Customized time-dependent HF/DFT unittest"""
number = 10
expected_l_max = 48000
expected_f_max = 0.9
class GenericTDDFTtrpTest(GenericTDTest):
"""Generic time-dependent HF/DFT (triplet) unittest"""
number = 5
expected_l_max = 24500
def testoscs(self):
"""Triplet excitations should be disallowed."""
assert len(self.data.etoscs) == self.number
assert abs(max(self.data.etoscs)) < 0.01
class OrcaROCISTest(GenericTDTest):
"""Customized test for ROCIS"""
number = 4
expected_l_max = 2316970.8
expected_f_max = 0.015
# per 1085, no VELOCITY DIPOLE MOMENTS are parsed
n_spectra = 7
# Do we want to parse ROCIS as its own method?
method = "CIS"
def testTransprop(self):
"""Check the number of spectra parsed"""
assert len(self.data.transprop) == self.n_spectra
tddft_length = 'ABSORPTION SPECTRUM VIA TRANSITION ELECTRIC DIPOLE MOMENTS'
assert tddft_length in self.data.transprop
def testsymsnumber(self):
"""ORCA ROCIS has no symmetry"""
pass
def testsecs(self):
"""ROCIS does not form singly excited configurations (secs)"""
pass
def testsecs_transition(self):
"""ROCIS does not form singly excited configurations (secs)"""
pass
def testrotatsnumber(self):
"""ROCIS does not calculate rotatory strengths"""
pass
def testsyms(self):
"""ROCIS does not show symmetries"""
pass
class OrcaROCIS40Test(OrcaROCISTest):
"""Customized test for ROCIS"""
# In ORCA 4.0, an additional spectrum ("COMBINED ELECTRIC DIPOLE +
# MAGNETIC DIPOLE + ELECTRIC QUADRUPOLE SPECTRUM (Origin Independent,
# Length Representation)") was present that is not in ORCA 4.1.
# Changed via 1085. VELOCITY DIPOLE MOMENTS are not parsed.
n_spectra = 8
class TurbomoleTDTest(GenericTDTest):
"""Customized time-dependent HF/DFT unittest"""
number = 10
expected_l_max = 91432
expected_f_max = 0.19
symmetries = ["Singlet-A"] * 10
@skipForLogfile('Turbomole/basicTurbomole7.4/CO_cc2_TD', 'There are no dipole moments in ricc2')
def testetmagdipsshape(self):
"""Is the shape of etmagdips correct?"""
assert numpy.shape(self.data.etmagdips) == (self.number, 3)
class TurbomoleTDADC2Test(GenericTDTest):
"""Customized time-dependent HF/DFT unittest"""
number = 10
expected_l_max = 136329
expected_f_max = 0.8
symmetries = ["Singlet-A"] * 10
method = "ADC(2)"
class TurbomoleTDCC2Test(TurbomoleTDTest):
"""Customized time-dependent HF/DFT unittest"""
method = "CC2"
class TurbomoleTDTripTest(GenericTDTest):
"""Customized time-dependent HF/DFT unittest"""
number = 10
expected_l_max = 51530
expected_f_max = 0.84
symmetries = ["Triplet-A"] * 10
method = "RPA"
class TurbomoleTDCC2TripTest(GenericTDTest):
"""Customized time-dependent HF/DFT unittest"""
# This test is for triplets with ricc2, which does not support oscillator strengths.
number = 10
symmetries = ["Triplet-A"] * 10
method = "CC2"
def testenergies(self):
"""Is the l_max reasonable?"""
assert len(self.data.etenergies) == self.number
class OrcaETPostHFTest(GenericTDTest):
"""Tests for post-HF excited states with ORCA."""
number = 2
symmetries = ["Singlet", "Singlet"]
expected_f_max = 1.0
expected_l_max = 60000
# Not sure why this value != 1 for these methods?
# Perhaps remaining contributions were too small to print?
sumofsec = 0.43
method = "EOM-CCSD"
class OrcaADC2Test(OrcaETPostHFTest):
method = "ADC(2)"
class OrcaSTEOMCCSDTest(OrcaETPostHFTest):
"""Test for STEOM-CCSD with Orca."""
sumofsec = 1.0
method = "STEOM-CCSD"
class GaussianEOMCCSDTest(GenericTDTest):
"""Test for EOM-CCSD with Gaussian."""
number = 10
expected_l_max = 61514.3
expected_f_max = 0.9802
symmetries = [
"Triplet-Bu",
"Triplet-Ag",
"Triplet-Bu",
"Singlet-Bu",
"Triplet-Bu",
"Triplet-Bu",
"Singlet-Bu",
"Triplet-Ag",
"Triplet-Bu",
"Triplet-Ag",
]
method = "EOM-CCSD"
if __name__ =="__main__":
import sys
sys.path.insert(1, os.path.join(__filedir__, ".."))
from test_data import DataSuite
suite = DataSuite(['TD'])
suite.testall()
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