def test_fullrunrapidtide_v3(debug=False, display=False):
# run rapidtide
inputargs = [
os.path.join(get_examples_path(), "sub-RAPIDTIDETEST.nii.gz"),
os.path.join(get_test_temp_path(), "sub-RAPIDTIDETEST"),
"--corrmask",
os.path.join(get_examples_path(),
"sub-RAPIDTIDETEST_restrictedmask.nii.gz:1"),
"--legacyoutput",
"--maxpasses",
"2",
"--numnull",
"100",
"--refinetype",
"pca",
"--convergencethresh",
"0.5",
"--noglm",
"--nprocs",
"-1",
"--similaritymetric",
"mutualinfo",
"--dpoutput",
"--spcalculation",
"--globalsignalmethod",
"pca",
"--regressor",
os.path.join(
get_examples_path(),
"sub-RAPIDTIDETEST_desc-oversampledmovingregressor_timeseries.json:pass3",
),
]
rapidtide_workflow.rapidtide_main(
rapidtide_parser.process_args(inputargs=inputargs))
def test_fullrunrapidtide_v5(debug=False, display=False):
# run rapidtide
inputargs = [
os.path.join(get_examples_path(), "sub-RAPIDTIDETEST_cifti.ptseries.nii"),
os.path.join(get_test_temp_path(), "sub-RAPIDTIDETEST"),
"--nprocs",
"-1",
"--passes",
"2",
"--numnull",
"0",
]
rapidtide_workflow.rapidtide_main(rapidtide_parser.process_args(inputargs=inputargs))
def test_fullrunrapidtide_v1(debug=False, display=False):
# run rapidtide
inputargs = [
os.path.join(get_examples_path(), "sub-RAPIDTIDETEST.nii.gz"),
os.path.join(get_test_temp_path(), "sub-RAPIDTIDETEST"),
"--spatialfilt",
"2",
"--nprocs",
"-1",
"--passes",
"1",
"--despecklepasses",
"3",
]
rapidtide_workflow.rapidtide_main(
rapidtide_parser.process_args(inputargs=inputargs))
def test_fullrunrapidtide_v4(debug=False, display=False):
# run rapidtide
inputargs = [
os.path.join(get_examples_path(), "sub-NIRSRAPIDTIDETEST.txt"),
os.path.join(get_test_temp_path(), "sub-NIRSRAPIDTIDETEST"),
"--globalmeaninclude",
os.path.join(get_examples_path(), "sub-NIRSRAPIDTIDETEST_mask.txt"),
"--nirs",
"--datatstep",
"0.2560",
"--globalmaskmethod",
"variance",
"--despecklepasses",
"0",
"--numnull",
"1000",
"--respdelete",
"--echocancel",
]
rapidtide_workflow.rapidtide_main(
rapidtide_parser.process_args(inputargs=inputargs))
def test_fullrunrapidtide_v2(debug=False, display=False):
# run rapidtide
inputargs = [
os.path.join(get_examples_path(), "sub-RAPIDTIDETEST.nii.gz"),
os.path.join(get_test_temp_path(), "sub-RAPIDTIDETEST"),
"--tmask",
os.path.join(get_examples_path(), "tmask3.txt"),
"--corrmask",
os.path.join(get_examples_path(),
"sub-RAPIDTIDETEST_restrictedmask.nii.gz"),
"--globalmeaninclude",
os.path.join(get_examples_path(),
"sub-RAPIDTIDETEST_brainmask.nii.gz"),
"--globalmeanexclude",
os.path.join(get_examples_path(), "sub-RAPIDTIDETEST_nullmask.nii.gz"),
"--refineinclude",
os.path.join(get_examples_path(),
"sub-RAPIDTIDETEST_brainmask.nii.gz"),
"--refineexclude",
os.path.join(get_examples_path(), "sub-RAPIDTIDETEST_nullmask.nii.gz"),
"--spatialfilt",
"-1",
"--savelags",
"--checkpoint",
"--saveintermediatemaps",
"--nolimitoutput",
"--calccoherence",
"--nprocs",
"1",
"--passes",
"2",
"--numnull",
"0",
"--similaritymetric",
"hybrid",
"--globalsignalmethod",
"meanscale",
]
rapidtide_workflow.rapidtide_main(
rapidtide_parser.process_args(inputargs=inputargs))
def main():
epsilon = 0.00001
# construct the first test vector
testvec = []
testvec.append("filterband")
testvec.append("filtertype")
testvec.append("searchrange")
testvec.append("pickleft")
testvec.append("corrweighting")
testvec.append("datafreq")
testvec.append("noantialias")
testvec.append("invert")
testvec.append("interptype")
testvec.append("offsettime")
testvec.append("datafreq")
print(testlist)
print(testvec)
# make the argument and results lists
arglist = [
"../data/examples/src/sub-RAPIDTIDETEST.nii.gz",
"../data/examples/dst/parsertestdummy",
]
resultlist = []
for thetest in testvec:
arglist += testlist[thetest]["command"]
for theresult in testlist[thetest]["results"]:
resultlist += [theresult]
print(arglist)
print(resultlist)
theargs, ncprefilter = process_args(inputargs=arglist)
checktests(testvec, testlist, theargs, epsilon)
# construct the second test vector
testvec = []
testvec.append("filterfreqs")
testvec.append("datatstep")
testvec.append("timerange")
testvec.append("numnull")
testvec.append("fixdelay")
print(testlist)
print(testvec)
# make the argument and results lists
arglist = [
"../data/examples/src/sub-RAPIDTIDETEST.nii.gz",
"../data/examples/dst/parsertestdummy",
]
resultlist = []
for thetest in testvec:
arglist += testlist[thetest]["command"]
for theresult in testlist[thetest]["results"]:
resultlist += [theresult]
print(arglist)
print(resultlist)
theargs, ncprefilter = process_args(inputargs=arglist)
checktests(testvec, testlist, theargs, epsilon)