def test_proxies(self):
mzs = np.array([ 0.0, 1.0, 2.0, 3.0, 4.0, 5.0 ]).reshape(-1,1)
ones = np.ones_like(mzs)
peaks = np.hstack((mzs, ones))
spec = Spectrum(peaks, 0.0, 1, "0")
spec.peaks[:, 0] += 1.0
assert np.linalg.norm(spec.peaks[:, 0] - mzs.flatten(), 1) == 6.0
def check(fun, spec=spec):
before = spec.uniqueId()
exec(fun, dict(spec=spec))
assert "unique_id" not in spec.meta
after = spec.uniqueId()
assert before != after
check("spec.peaks[:, 0] += 1")
check("spec.peaks += 1")
check("spec.peaks -= 1")
check("spec.peaks /= 2.1")
check("spec.peaks //= 2.1")
check("spec.peaks *= 2")
check("spec.peaks %= 1.1")
check("spec.peaks **= 2")
check("spec.rt += 1")
check("spec.msLevel += 1")
check("spec.precursors = [(1, 1, 0)]")
check("spec.polarity = '+'")
pm = PeakMap([spec])
before = pm.uniqueId()
pm.spectra[0].rt += 2
after = spec.uniqueId()
assert before != after
from cPickle import loads, dumps
back = loads(dumps(pm))
back.meta.pop("unique_id", None)
pm.meta.pop("unique_id", None)
assert back.uniqueId() == pm.uniqueId()
# this was broken after pickling, the callback was not pickled and calling
# it whein operatin on peaks rose an excepion
for s in back:
s.peaks += 1
# this was broken because it creates a view which is not continous:
s.peaks = s.peaks[1:-1:2]
assert s.uniqueId()
spec_new = loads(dumps(spec))
assert spec_new.scan_number == spec.scan_number
assert spec_new.rt == spec.rt
assert spec_new.msLevel == spec.msLevel
assert spec_new.precursors == spec.precursors
assert spec_new.polarity == spec.polarity
assert np.linalg.norm(spec_new.peaks - spec.peaks) == 0.0
def test_proxies(self):
mzs = np.array([0.0, 1.0, 2.0, 3.0, 4.0, 5.0]).reshape(-1, 1)
ones = np.ones_like(mzs)
peaks = np.hstack((mzs, ones))
spec = Spectrum(peaks, 0.0, 1, "0")
spec.peaks[:, 0] += 1.0
assert np.linalg.norm(spec.peaks[:, 0] - mzs.flatten(), 1) == 6.0
def check(fun, spec=spec):
before = spec.uniqueId()
exec(fun, dict(spec=spec))
assert "unique_id" not in spec.meta
after = spec.uniqueId()
assert before != after
check("spec.peaks[:, 0] += 1")
check("spec.peaks += 1")
check("spec.peaks -= 1")
check("spec.peaks /= 2.1")
check("spec.peaks //= 2.1")
check("spec.peaks *= 2")
check("spec.peaks %= 1.1")
check("spec.peaks **= 2")
check("spec.rt += 1")
check("spec.msLevel += 1")
check("spec.precursors = [(1, 1, 0)]")
check("spec.polarity = '+'")
pm = PeakMap([spec])
before = pm.uniqueId()
pm.spectra[0].rt += 2
after = spec.uniqueId()
assert before != after
from cPickle import loads, dumps
back = loads(dumps(pm))
back.meta.pop("unique_id", None)
pm.meta.pop("unique_id", None)
assert back.uniqueId() == pm.uniqueId()
# this was broken after pickling, the callback was not pickled and calling
# it whein operatin on peaks rose an excepion
for s in back:
s.peaks += 1
# this was broken because it creates a view which is not continous:
s.peaks = s.peaks[1:-1:2]
assert s.uniqueId()
spec_new = loads(dumps(spec))
assert spec_new.scan_number == spec.scan_number
assert spec_new.rt == spec.rt
assert spec_new.msLevel == spec.msLevel
assert spec_new.precursors == spec.precursors
assert spec_new.polarity == spec.polarity
assert np.linalg.norm(spec_new.peaks - spec.peaks) == 0.0
def test_proxies(self):
mzs = np.array([0.0, 1.0, 2.0, 3.0, 4.0, 5.0]).reshape(-1, 1)
ones = np.ones_like(mzs)
peaks = np.hstack((mzs, ones))
spec = Spectrum(peaks, 0.0, 1, "0")
spec.peaks[:, 0] += 1.0
assert np.linalg.norm(spec.peaks[:, 0] - mzs.flatten(), 1) == 6.0
def check(fun, spec=spec):
before = spec.uniqueId()
exec(fun, dict(spec=spec))
assert "unique_id" not in spec.meta
after = spec.uniqueId()
assert before != after
check("spec.peaks[:, 0] += 1")
check("spec.peaks += 1")
check("spec.peaks -= 1")
check("spec.peaks /= 2.1")
check("spec.peaks //= 2.1")
check("spec.peaks *= 2")
check("spec.peaks %= 1.1")
check("spec.peaks **= 2")
check("spec.rt += 1")
check("spec.msLevel += 1")
check("spec.precursors = [(1, 1)]")
check("spec.polarity = '+'")
pm = PeakMap([spec])
before = pm.uniqueId()
pm.spectra[0].rt += 2
after = spec.uniqueId()
assert before != after
from cPickle import loads, dumps
back = loads(dumps(pm))
back.meta.pop("unique_id", None)
pm.meta.pop("unique_id", None)
assert back.uniqueId() == pm.uniqueId()
def test_proxies(self):
mzs = np.array([ 0.0, 1.0, 2.0, 3.0, 4.0, 5.0 ]).reshape(-1,1)
ones = np.ones_like(mzs)
peaks = np.hstack((mzs, ones))
spec = Spectrum(peaks, 0.0, 1, "0")
spec.peaks[:, 0] += 1.0
assert np.linalg.norm(spec.peaks[:, 0] - mzs.flatten(), 1) == 6.0
def check(fun, spec=spec):
before = spec.uniqueId()
exec(fun, dict(spec=spec))
assert "unique_id" not in spec.meta
after = spec.uniqueId()
assert before != after
check("spec.peaks[:, 0] += 1")
check("spec.peaks += 1")
check("spec.peaks -= 1")
check("spec.peaks /= 2.1")
check("spec.peaks //= 2.1")
check("spec.peaks *= 2")
check("spec.peaks %= 1.1")
check("spec.peaks **= 2")
check("spec.rt += 1")
check("spec.msLevel += 1")
check("spec.precursors = [(1, 1)]")
check("spec.polarity = '+'")
pm = PeakMap([spec])
before = pm.uniqueId()
pm.spectra[0].rt += 2
after = spec.uniqueId()
assert before != after
from cPickle import loads, dumps
back = loads(dumps(pm))
back.meta.pop("unique_id", None)
pm.meta.pop("unique_id", None)
assert back.uniqueId() == pm.uniqueId()
