def testGetAttrWorks(self):
rbool(True).val
rdouble(0.0).val
rfloat(0.0).val
rint(0).val
rlong(0).val
rtime(0).val
rinternal(None).val
robject(None).val
rstring("").val
rclass("").val
rarray().val
rlist().val
rset().val
rmap().val
def testGetAttrWorks(self):
rbool(True).val
rdouble(0.0).val
rfloat(0.0).val
rint(0).val
rlong(0).val
rtime(0).val
rinternal(None).val
robject(None).val
rstring("").val
rclass("").val
rarray().val
rlist().val
rset().val
rmap().val
def testConversionMethod(self):
assert None == rtype(None)
assert rlong(1) == rtype(rlong(1)) # Returns self
assert rbool(True) == rtype(True)
# Unsupported
# assert rdouble(0) == rtype(Double.valueOf(0))
assert rfloat(0) == rtype(float(0))
if sys.version_info < (3, 0, 0):
assert rlong(0) == rtype(long(0))
else:
assert rint(0) == rtype(long(0))
assert rint(0) == rtype(int(0))
assert rstring("string") == rtype("string")
# Unsupported
# assert rtime(time) == rtype(new Timestamp(time))
rtype(omero.model.ImageI())
rtype(omero.grid.JobParams())
rtype(set([rlong(1)]))
rtype(list([rlong(2)]))
rtype({})
# Unsupported
# rtype(array)
try:
rtype(())
assert False, "Shouldn't be able to handle this yet"
except omero.ClientError:
pass
def get_meta_map(self):
self.__initcheck()
metadata = {}
attr = self.__mea.attrs
keys = list(self.__mea.attrs._v_attrnamesuser)
for key in keys:
val = attr[key]
if isinstance(val, float):
val = rfloat(val)
elif isinstance(val, TABLES_METADATA_INT_TYPES):
val = rlong(val)
elif isinstance(val, basestring):
val = rstring(val)
else:
raise omero.ValidationException("BAD TYPE: %s" % type(val))
metadata[key] = val
return metadata
def get_meta_map(self):
self.__initcheck()
metadata = {}
attr = self.__mea.attrs
keys = list(self.__mea.attrs._v_attrnamesuser)
for key in keys:
val = attr[key]
if isinstance(val, float):
val = rfloat(val)
elif isinstance(val, int):
val = rint(val)
elif isinstance(val, long):
val = rlong(val)
elif isinstance(val, str):
val = rstring(val)
else:
raise omero.ValidationException("BAD TYPE: %s" % type(val))
metadata[key] = val
return metadata
def test2855MetadataMethods(self):
"""
Tests the various metadata methods for a table
"""
grid = self.client.sf.sharedResources()
table = grid.newTable(1, "/test")
assert table
def clean(m):
"""
Unwraps the RTypes for easier processing
and gets rid of auto-generated values for
easier testing.
"""
m = unwrap(m)
del m["initialized"]
del m["version"]
return m
try:
print table.getOriginalFile().id.val
lc = columns.LongColumnI('lc', 'desc', [1])
table.initialize([lc])
assert len(clean(table.getAllMetadata())) == 0
# Set a string
table.setMetadata("s", rstring("b"))
assert "b" == unwrap(table.getMetadata("s"))
assert {"s": "b"} == clean(table.getAllMetadata())
# Set an int
table.setMetadata("i", rint(1))
assert 1 == unwrap(table.getMetadata("i"))
assert {"s": "b", "i": 1} == clean(table.getAllMetadata())
# Set a float
table.setMetadata("f", rfloat(1))
assert 1 == unwrap(table.getMetadata("f"))
assert {"s": "b", "i": 1, "f": 1} == clean(table.getAllMetadata())
finally:
table.close()
def test2855MetadataMethods(self):
"""
Tests the various metadata methods for a table
"""
grid = self.client.sf.sharedResources()
table = grid.newTable(1, "/test")
assert table
def clean(m):
"""
Unwraps the RTypes for easier processing
and gets rid of auto-generated values for
easier testing.
"""
m = unwrap(m)
del m["initialized"]
del m["version"]
return m
try:
print table.getOriginalFile().id.val
lc = columns.LongColumnI('lc', 'desc', [1])
table.initialize([lc])
assert len(clean(table.getAllMetadata())) == 0
# Set a string
table.setMetadata("s", rstring("b"))
assert "b" == unwrap(table.getMetadata("s"))
assert {"s": "b"} == clean(table.getAllMetadata())
# Set an int
table.setMetadata("i", rint(1))
assert 1 == unwrap(table.getMetadata("i"))
assert {"s": "b", "i": 1} == clean(table.getAllMetadata())
# Set a float
table.setMetadata("f", rfloat(1))
assert 1 == unwrap(table.getMetadata("f"))
assert {"s": "b", "i": 1, "f": 1} == clean(table.getAllMetadata())
finally:
table.close()
def testConversionMethod(self):
assert None == rtype(None)
assert rlong(1) == rtype(rlong(1)) # Returns self
assert rbool(True) == rtype(True)
# Unsupported
# assert rdouble(0) == rtype(Double.valueOf(0))
assert rfloat(0) == rtype(float(0))
assert rlong(0) == rtype(long(0))
assert rint(0) == rtype(int(0))
assert rstring("string") == rtype("string")
# Unsupported
# assert rtime(time) == rtype(new Timestamp(time))
rtype(omero.model.ImageI())
rtype(omero.grid.JobParams())
rtype(set([rlong(1)]))
rtype(list([rlong(2)]))
rtype({})
# Unsupported
# rtype(array)
try:
rtype(())
assert False, "Shouldn't be able to handle this yet"
except omero.ClientError:
pass
def testUnwrap(self):
# NUMS plain
assert 0 == unwrap(0)
assert 1 == unwrap(1)
assert 0.0 == unwrap(0.0)
assert 1.0 == unwrap(1.0)
# NUMS rtyped
assert 0 == unwrap(rint(0))
assert 0 == unwrap(rlong(0))
assert 1 == unwrap(rint(1))
assert 1 == unwrap(rlong(1))
assert 0.0 == unwrap(rfloat(0.0))
assert 0.0 == unwrap(rdouble(0.0))
assert 1.0 == unwrap(rfloat(1.0))
assert 1.0 == unwrap(rdouble(1.0))
# STRINGS
assert "" == unwrap("")
assert "str" == unwrap("str")
# BOOL
assert True == unwrap(True)
assert False == unwrap(False)
assert True == unwrap(rbool(True))
assert False == unwrap(rbool(False))
# TIME
# Bit odd, do we want the long for time, or transformed?
assert 0 == unwrap(rtime(0))
assert 1 == unwrap(rtime(1))
# CLASS
# same for class, should we map it?
assert "k" == unwrap(rclass("k"))
# INTERNAL
color = omero.Color()
assert color == unwrap(rinternal(color))
# OBJECT
image = omero.model.ImageI()
assert image == unwrap(robject(image))
# COLLECTIONS
# empty
assert [] == unwrap([])
assert {} == unwrap({})
assert set() == unwrap(set())
# plain in collection
assert [1] == unwrap([1])
# rtype in collection
assert [1] == unwrap([rint(1)])
assert {"a": 1} == unwrap({"a": 1})
# plain in rcollection ILLEGAL
# assert [1] == unwrap(rlist([1]))
# assert {"a":1} == unwrap(rmap({"a":1}))
# rtype in rcollection
assert [1] == unwrap(rlist([rint(1)]))
assert {"a": 1} == unwrap(rmap({"a": rint(1)}))
# rtype keys ILLEGAL
# assert {"a":1} == unwrap(rmap({rstring("a"):rint(1)}))
# recursion, ticket:1977
m1 = rmap({"a": rint(1)})
m1.val["m1"] = m1
m2 = {"a": 1}
m2["m1"] = m2
unwrap(m1)
assert m2["a"] == unwrap(m1)["a"]
# Can't compare directly "maximum recursion depth exceeded in cmp"
assert type(m2["m1"]) == type(unwrap(m1)["m1"])
def testPassThroughNoneAndRTypes(self):
"""
To prevent having to check for isintance(int,...) or
isintance(RInt,...) all over the place, the static methods
automatically check for acceptable
types and simply pass them through. Similarly, the primitive types all
check for None and return a null RType if necessary.
"""
# Bool
assert None == rbool(None)
assert rbool(True) == rbool(rbool(True))
assert rbool(True) == rbool(1)
assert rbool(False) == rbool(0)
# Double
assert None == rdouble(None)
assert rdouble(0.0) == rdouble(rdouble(0.0))
assert rdouble(0.0) == rdouble(rdouble(0))
assert rdouble(0.0) == rdouble(rdouble("0.0"))
pytest.raises(ValueError, lambda: rdouble("string"))
# Float
assert None == rfloat(None)
assert rfloat(0.0) == rfloat(rfloat(0.0))
assert rfloat(0.0) == rfloat(rfloat(0))
assert rfloat(0.0) == rfloat(rfloat("0.0"))
pytest.raises(ValueError, lambda: rfloat("string"))
# Long
assert None == rlong(None)
assert rlong(0) == rlong(rlong(0))
assert rlong(0) == rlong(rlong(0.0))
assert rlong(0) == rlong(rlong("0"))
pytest.raises(ValueError, lambda: rlong("string"))
# Time
assert None == rtime(None)
assert rtime(0) == rtime(rtime(0))
assert rtime(0) == rtime(rtime(0.0))
assert rtime(0) == rtime(rtime("0"))
pytest.raises(ValueError, lambda: rtime("string"))
# Int
assert None == rint(None)
assert rint(0) == rint(rint(0))
assert rint(0) == rint(rint(0.0))
assert rint(0) == rint(rint("0"))
pytest.raises(ValueError, lambda: rint("string"))
#
# Starting here handling of null is different.
#
# String
assert rstring("") == rstring(None)
assert rstring("a") == rstring(rstring("a"))
assert rstring("0") == rstring(0)
# Class
assert rclass("") == rclass(None)
assert rclass("c") == rclass(rclass("c"))
pytest.raises(ValueError, lambda: rclass(0))
# Internal
internal = omero.Internal()
assert rinternal(None) == rinternal(None)
assert rinternal(internal) == rinternal(rinternal(internal))
pytest.raises(ValueError, lambda: rinternal("string"))
# Object
obj = omero.model.ImageI()
assert robject(None) == robject(None)
assert robject(obj) == robject(robject(obj))
pytest.raises(ValueError, lambda: robject("string"))
#
# Same does not hold for collections
#
# Array
assert rarray([]) == rarray(None)
# assert rarray(obj) == rarray(rarray(obj))
# pytest.raises(ValueError, lambda : rarray("string"))
# List
assert rlist([]) == rlist(None)
# assert rlist(obj) == rlist(rlist(obj))
# pytest.raises(ValueError, lambda : rlist("string"))
# Set
assert rset([]) == rset(None)
# assert rset(obj) == rset(rset(obj))
# pytest.raises(ValueError, lambda : rset("string"))
# Map
assert rmap({}) == rmap(None)
def _testCreateAllColumnsAndMetadata(self):
grid = self.client.sf.sharedResources()
repoMap = grid.repositories()
repoObj = repoMap.descriptions[0]
table = grid.newTable(repoObj.id.val, "/test")
assert table
# Supported metadata types
# https://github.com/ome/omero-py/blob/v5.5.1/src/omero/hdfstorageV2.py#L466
metadata = {
'string': rstring('a'),
'int': rint(1),
'long': rlong(1),
'double': rfloat(0.1),
}
fcol = columns.FileColumnI('filecol', 'file col')
fcol.values = [10, 20]
icol = columns.ImageColumnI('imagecol', 'image col')
icol.values = [30, 40]
rcol = columns.RoiColumnI('roicol', 'roi col')
rcol.values = [50, 60]
wcol = columns.WellColumnI('wellcol', 'well col')
wcol.values = [70, 80]
pcol = columns.PlateColumnI('platecol', 'plate col')
pcol.values = [90, 100]
bcol = columns.BoolColumnI('boolcol', 'bool col')
bcol.values = [True, False]
dcol = columns.DoubleColumnI('doublecol', 'double col')
dcol.values = [0.25, 0.5]
lcol = columns.LongColumnI('longcol', 'long col')
lcol.values = [-1, -2]
scol = columns.StringColumnI('stringcol', 'string col', 3)
scol.values = ["abc", "de"]
larr = columns.LongArrayColumnI('longarr', 'longarr col', 2)
larr.values = [[-2, -1], [1, 2]]
farr = columns.FloatArrayColumnI('floatarr', 'floatarr col', 2)
farr.values = [[-0.25, -0.5], [0.125, 0.0625]]
darr = columns.DoubleArrayColumnI('doublearr', 'doublearr col', 2)
darr.values = [[-0.25, -0.5], [0.125, 0.0625]]
dscol = columns.DatasetColumnI('datasetcol', 'dataset col')
dscol.values = [110, 120]
mask = self.createMaskCol()
cols = [
fcol, icol, rcol, wcol, pcol, bcol, dcol, lcol, scol, mask, larr,
farr, darr, dscol
]
table.initialize(cols)
table.setAllMetadata(metadata)
table.addData(cols)
data = table.readCoordinates([0, 1])
testf = data.columns[0].values
assert 10 == testf[0]
assert 20 == testf[1]
testi = data.columns[1].values
assert 30 == testi[0]
assert 40 == testi[1]
testr = data.columns[2].values
assert 50 == testr[0]
assert 60 == testr[1]
testw = data.columns[3].values
assert 70 == testw[0]
assert 80 == testw[1]
testp = data.columns[4].values
assert 90 == testp[0]
assert 100 == testp[1]
testb = data.columns[5].values
assert testb[0]
assert not testb[1]
testd = data.columns[6].values
assert 0.25 == testd[0]
assert 0.5 == testd[1]
testl = data.columns[7].values
assert -1 == testl[0]
assert -2 == testl[1]
tests = data.columns[8].values
assert "abc" == tests[0]
assert "de" == tests[1]
testm = data.columns[9]
self.checkMaskCol(testm)
testla = data.columns[10].values
assert [-2, -1] == testla[0]
assert [1, 2] == testla[1]
testfa = data.columns[11].values
assert [-0.25, -0.5] == testfa[0]
assert [0.125, 0.0625] == testfa[1]
testda = data.columns[12].values
assert [-0.25, -0.5] == testda[0]
assert [0.125, 0.0625] == testda[1]
testds = data.columns[13].values
assert 110 == testds[0]
assert 120 == testds[1]
ofile = table.getOriginalFile()
print("Created OriginalFile:", ofile.getId().val)
return table
def testCreateAllColumnsAndMetadata_5_3_4(self):
"""
Call this method to create the reference HDF5 table under a 5.3.4
Python 2.7 server. The OriginalFile ID of the table will be printed,
and can be used to find the file under ${omero.data.dir}/Files/.
Alternatively download it using
``omero download OriginalFile:FileID output.h5``
To run manually goto ``components/tools/OmeroPy``, and run:
``pytest test/integration/tablestest/test_backwards_compatibility.py\
-s -k testCreateAllColumnsAndMetadata_5_3_4``
"""
grid = self.client.sf.sharedResources()
repoMap = grid.repositories()
repoObj = repoMap.descriptions[0]
table = grid.newTable(repoObj.id.val, "/test")
assert table
# Supported metadata types
# https://github.com/ome/omero-py/blob/v5.5.1/src/omero/hdfstorageV2.py#L466
metadata = {
'string': rstring('a'),
'int': rint(1),
'long': rlong(1),
'double': rfloat(0.1),
}
fcol = columns.FileColumnI('filecol', 'file col')
fcol.values = [10, 20]
icol = columns.ImageColumnI('imagecol', 'image col')
icol.values = [30, 40]
rcol = columns.RoiColumnI('roicol', 'roi col')
rcol.values = [50, 60]
wcol = columns.WellColumnI('wellcol', 'well col')
wcol.values = [70, 80]
pcol = columns.PlateColumnI('platecol', 'plate col')
pcol.values = [90, 100]
bcol = columns.BoolColumnI('boolcol', 'bool col')
bcol.values = [True, False]
dcol = columns.DoubleColumnI('doublecol', 'double col')
dcol.values = [0.25, 0.5]
lcol = columns.LongColumnI('longcol', 'long col')
lcol.values = [-1, -2]
scol = columns.StringColumnI('stringcol', 'string col', 3)
scol.values = ["abc", "de"]
larr = columns.LongArrayColumnI('longarr', 'longarr col', 2)
larr.values = [[-2, -1], [1, 2]]
farr = columns.FloatArrayColumnI('floatarr', 'floatarr col', 2)
farr.values = [[-0.25, -0.5], [0.125, 0.0625]]
darr = columns.DoubleArrayColumnI('doublearr', 'doublearr col', 2)
darr.values = [[-0.25, -0.5], [0.125, 0.0625]]
# DatasetColumn is broken!
mask = self.createMaskCol()
cols = [
fcol, icol, rcol, wcol, pcol, bcol, dcol, lcol, scol, mask, larr,
farr, darr
]
table.initialize(cols)
table.setAllMetadata(metadata)
table.addData(cols)
data = table.readCoordinates([0, 1])
testf = data.columns[0].values
assert 10 == testf[0]
assert 20 == testf[1]
testi = data.columns[1].values
assert 30 == testi[0]
assert 40 == testi[1]
testr = data.columns[2].values
assert 50 == testr[0]
assert 60 == testr[1]
testw = data.columns[3].values
assert 70 == testw[0]
assert 80 == testw[1]
testp = data.columns[4].values
assert 90 == testp[0]
assert 100 == testp[1]
testb = data.columns[5].values
assert testb[0]
assert not testb[1]
testd = data.columns[6].values
assert 0.25 == testd[0]
assert 0.5 == testd[1]
testl = data.columns[7].values
assert -1 == testl[0]
assert -2 == testl[1]
tests = data.columns[8].values
assert "abc" == tests[0]
assert "de" == tests[1]
testm = data.columns[9]
self.checkMaskCol(testm)
testla = data.columns[10].values
assert [-2, -1] == testla[0]
assert [1, 2] == testla[1]
testfa = data.columns[11].values
assert [-0.25, -0.5] == testfa[0]
assert [0.125, 0.0625] == testfa[1]
testda = data.columns[12].values
assert [-0.25, -0.5] == testda[0]
assert [0.125, 0.0625] == testda[1]
ofile = table.getOriginalFile()
print("Created OriginalFile:", ofile.getId().val)
table.close()
def testObjectCreationEqualsAndHash(self):
# RBool
true1 = rbool(True)
true2 = rbool(True)
false1 = rbool(False)
false2 = rbool(False)
assert true1 == true2
assert false1 == false2
assert true1.getValue()
assert not false1.getValue()
assert true1 == true2
assert true1 != false1
# RDouble
double_zero1 = rdouble(0.0)
double_zero2 = rdouble(0.0)
double_notzero1 = rdouble(1.1)
double_notzero1b = rdouble(1.1)
double_notzero2 = rdouble(2.2)
assert double_zero1.getValue() == 0.0
assert double_notzero1.getValue() == 1.1
assert double_zero1 == double_zero2
assert double_zero1 != double_notzero1
assert double_notzero1 == double_notzero1b
assert double_notzero1 != double_notzero2
# RFloat
float_zero1 = rfloat(0.0)
float_zero2 = rfloat(0.0)
float_notzero1 = rfloat(1.1)
float_notzero1b = rfloat(1.1)
float_notzero2 = rfloat(2.2)
assert float_zero1.getValue() == 0.0
assert float_notzero1.getValue() == 1.1
assert float_zero1 == float_zero2
assert float_zero1 != float_notzero1
assert float_notzero1 == float_notzero1b
assert float_notzero1 != float_notzero2
# RInt
int_zero1 = rint(0)
int_zero2 = rint(0)
int_notzero1 = rint(1)
int_notzero1b = rint(1)
int_notzero2 = rint(2)
assert int_zero1.getValue() == 0
assert int_notzero1.getValue() == 1
assert int_zero1 == int_zero2
assert int_zero1 != int_notzero1
assert int_notzero1 == int_notzero1b
assert int_notzero1 != int_notzero2
# RLong
long_zero1 = rlong(0)
long_zero2 = rlong(0)
long_notzero1 = rlong(1)
long_notzero1b = rlong(1)
long_notzero2 = rlong(2)
assert long_zero1.getValue() == 0
assert long_notzero1.getValue() == 1
assert long_zero1 == long_zero2
assert long_zero1 != long_notzero1
assert long_notzero1 == long_notzero1b
assert long_notzero1 != long_notzero2
# RTime
time_zero1 = rtime(0)
time_zero2 = rtime(0)
time_notzero1 = rtime(1)
time_notzero1b = rtime(1)
time_notzero2 = rtime(2)
assert time_zero1.getValue() == 0
assert time_notzero1.getValue() == 1
assert time_zero1 == time_zero2
assert time_zero1 != time_notzero1
assert time_notzero1 == time_notzero1b
assert time_notzero1 != time_notzero2
# RInternal
internal_null1 = rinternal(None)
internal_null2 = rinternal(None)
internal_notnull1 = rinternal(omero.grid.JobParams())
internal_notnull2 = rinternal(omero.grid.JobParams())
assert internal_null1 == internal_null2
assert internal_null1 == internal_null2
assert internal_null1 != internal_notnull2
assert internal_notnull1 == internal_notnull1
assert internal_notnull1 != internal_notnull2
# RObject
object_null1 = robject(None)
object_null2 = robject(None)
object_notnull1 = robject(omero.model.ImageI())
object_notnull2 = robject(omero.model.ImageI())
assert object_null1 == object_null2
assert object_null1 == object_null2
assert object_null1 != object_notnull2
assert object_notnull1 == object_notnull1
assert object_notnull1 != object_notnull2
# RString
string_null1 = rstring(None)
string_null2 = rstring(None)
string_notnull1 = rstring("str1")
string_notnull1b = rstring("str1")
string_notnull2 = rstring("str2")
assert string_null1 == string_null2
assert string_null1 == string_null2
assert string_null1 != string_notnull2
assert string_notnull1 == string_notnull1
assert string_notnull1 != string_notnull2
assert string_notnull1 == string_notnull1b
# RClass
class_null1 = rclass(None)
class_null2 = rclass(None)
class_notnull1 = rclass("str1")
class_notnull1b = rclass("str1")
class_notnull2 = rclass("str2")
assert class_null1 == class_null2
assert class_null1 == class_null2
assert class_null1 != class_notnull2
assert class_notnull1 == class_notnull1
assert class_notnull1 != class_notnull2
assert class_notnull1 == class_notnull1b
def testUnwrap(self):
# NUMS plain
assert 0 == unwrap(0)
assert 1 == unwrap(1)
assert 0.0 == unwrap(0.0)
assert 1.0 == unwrap(1.0)
# NUMS rtyped
assert 0 == unwrap(rint(0))
assert 0 == unwrap(rlong(0))
assert 1 == unwrap(rint(1))
assert 1 == unwrap(rlong(1))
assert 0.0 == unwrap(rfloat(0.0))
assert 0.0 == unwrap(rdouble(0.0))
assert 1.0 == unwrap(rfloat(1.0))
assert 1.0 == unwrap(rdouble(1.0))
# STRINGS
assert "" == unwrap("")
assert "str" == unwrap("str")
# BOOL
assert True == unwrap(True)
assert False == unwrap(False)
assert True == unwrap(rbool(True))
assert False == unwrap(rbool(False))
# TIME
# Bit odd, do we want the long for time, or transformed?
assert 0 == unwrap(rtime(0))
assert 1 == unwrap(rtime(1))
# CLASS
# same for class, should we map it?
assert "k" == unwrap(rclass("k"))
# INTERNAL
color = omero.Color()
assert color == unwrap(rinternal(color))
# OBJECT
image = omero.model.ImageI()
assert image == unwrap(robject(image))
# COLLECTIONS
# empty
assert [] == unwrap([])
assert {} == unwrap({})
assert set() == unwrap(set())
# plain in collection
assert [1] == unwrap([1])
# rtype in collection
assert [1] == unwrap([rint(1)])
assert {"a": 1} == unwrap({"a": 1})
# plain in rcollection ILLEGAL
# assert [1] == unwrap(rlist([1]))
# assert {"a":1} == unwrap(rmap({"a":1}))
# rtype in rcollection
assert [1] == unwrap(rlist([rint(1)]))
assert {"a": 1} == unwrap(rmap({"a": rint(1)}))
# rtype keys ILLEGAL
# assert {"a":1} == unwrap(rmap({rstring("a"):rint(1)}))
# recursion, ticket:1977
m1 = rmap({"a": rint(1)})
m1.val["m1"] = m1
m2 = {"a": 1}
m2["m1"] = m2
unwrap(m1)
assert m2["a"] == unwrap(m1)["a"]
# Can't compare directly "maximum recursion depth exceeded in cmp"
assert type(m2["m1"]) == type(unwrap(m1)["m1"])
def testPassThroughNoneAndRTypes(self):
"""
To prevent having to check for isintance(int,...) or
isintance(RInt,...) all over the place, the static methods
automatically check for acceptable
types and simply pass them through. Similarly, the primitive types all
check for None and return a null RType if necessary.
"""
# Bool
assert None == rbool(None)
assert rbool(True) == rbool(rbool(True))
assert rbool(True) == rbool(1)
assert rbool(False) == rbool(0)
# Double
assert None == rdouble(None)
assert rdouble(0.0) == rdouble(rdouble(0.0))
assert rdouble(0.0) == rdouble(rdouble(0))
assert rdouble(0.0) == rdouble(rdouble("0.0"))
pytest.raises(ValueError, lambda: rdouble("string"))
# Float
assert None == rfloat(None)
assert rfloat(0.0) == rfloat(rfloat(0.0))
assert rfloat(0.0) == rfloat(rfloat(0))
assert rfloat(0.0) == rfloat(rfloat("0.0"))
pytest.raises(ValueError, lambda: rfloat("string"))
# Long
assert None == rlong(None)
assert rlong(0) == rlong(rlong(0))
assert rlong(0) == rlong(rlong(0.0))
assert rlong(0) == rlong(rlong("0"))
pytest.raises(ValueError, lambda: rlong("string"))
# Time
assert None == rtime(None)
assert rtime(0) == rtime(rtime(0))
assert rtime(0) == rtime(rtime(0.0))
assert rtime(0) == rtime(rtime("0"))
pytest.raises(ValueError, lambda: rtime("string"))
# Int
assert None == rint(None)
assert rint(0) == rint(rint(0))
assert rint(0) == rint(rint(0.0))
assert rint(0) == rint(rint("0"))
pytest.raises(ValueError, lambda: rint("string"))
#
# Starting here handling of null is different.
#
# String
assert rstring("") == rstring(None)
assert rstring("a") == rstring(rstring("a"))
assert rstring("0") == rstring(0)
# Class
assert rclass("") == rclass(None)
assert rclass("c") == rclass(rclass("c"))
pytest.raises(ValueError, lambda: rclass(0))
# Internal
internal = omero.Internal()
assert rinternal(None) == rinternal(None)
assert rinternal(internal) == rinternal(rinternal(internal))
pytest.raises(ValueError, lambda: rinternal("string"))
# Object
obj = omero.model.ImageI()
assert robject(None) == robject(None)
assert robject(obj) == robject(robject(obj))
pytest.raises(ValueError, lambda: robject("string"))
#
# Same does not hold for collections
#
# Array
assert rarray([]) == rarray(None)
# assert rarray(obj) == rarray(rarray(obj))
# pytest.raises(ValueError, lambda : rarray("string"))
# List
assert rlist([]) == rlist(None)
# assert rlist(obj) == rlist(rlist(obj))
# pytest.raises(ValueError, lambda : rlist("string"))
# Set
assert rset([]) == rset(None)
# assert rset(obj) == rset(rset(obj))
# pytest.raises(ValueError, lambda : rset("string"))
# Map
assert rmap({}) == rmap(None)
def testObjectCreationEqualsAndHash(self):
# RBool
true1 = rbool(True)
true2 = rbool(True)
false1 = rbool(False)
false2 = rbool(False)
assert true1 == true2
assert false1 == false2
assert true1.getValue()
assert not false1.getValue()
assert true1 == true2
assert true1 != false1
# RDouble
double_zero1 = rdouble(0.0)
double_zero2 = rdouble(0.0)
double_notzero1 = rdouble(1.1)
double_notzero1b = rdouble(1.1)
double_notzero2 = rdouble(2.2)
assert double_zero1.getValue() == 0.0
assert double_notzero1.getValue() == 1.1
assert double_zero1 == double_zero2
assert double_zero1 != double_notzero1
assert double_notzero1 == double_notzero1b
assert double_notzero1 != double_notzero2
# RFloat
float_zero1 = rfloat(0.0)
float_zero2 = rfloat(0.0)
float_notzero1 = rfloat(1.1)
float_notzero1b = rfloat(1.1)
float_notzero2 = rfloat(2.2)
assert float_zero1.getValue() == 0.0
assert float_notzero1.getValue() == 1.1
assert float_zero1 == float_zero2
assert float_zero1 != float_notzero1
assert float_notzero1 == float_notzero1b
assert float_notzero1 != float_notzero2
# RInt
int_zero1 = rint(0)
int_zero2 = rint(0)
int_notzero1 = rint(1)
int_notzero1b = rint(1)
int_notzero2 = rint(2)
assert int_zero1.getValue() == 0
assert int_notzero1.getValue() == 1
assert int_zero1 == int_zero2
assert int_zero1 != int_notzero1
assert int_notzero1 == int_notzero1b
assert int_notzero1 != int_notzero2
# RLong
long_zero1 = rlong(0)
long_zero2 = rlong(0)
long_notzero1 = rlong(1)
long_notzero1b = rlong(1)
long_notzero2 = rlong(2)
assert long_zero1.getValue() == 0
assert long_notzero1.getValue() == 1
assert long_zero1 == long_zero2
assert long_zero1 != long_notzero1
assert long_notzero1 == long_notzero1b
assert long_notzero1 != long_notzero2
# RTime
time_zero1 = rtime(0)
time_zero2 = rtime(0)
time_notzero1 = rtime(1)
time_notzero1b = rtime(1)
time_notzero2 = rtime(2)
assert time_zero1.getValue() == 0
assert time_notzero1.getValue() == 1
assert time_zero1 == time_zero2
assert time_zero1 != time_notzero1
assert time_notzero1 == time_notzero1b
assert time_notzero1 != time_notzero2
# RInternal
internal_null1 = rinternal(None)
internal_null2 = rinternal(None)
internal_notnull1 = rinternal(omero.grid.JobParams())
internal_notnull2 = rinternal(omero.grid.JobParams())
assert internal_null1 == internal_null2
assert internal_null1 == internal_null2
assert internal_null1 != internal_notnull2
assert internal_notnull1 == internal_notnull1
assert internal_notnull1 != internal_notnull2
# RObject
object_null1 = robject(None)
object_null2 = robject(None)
object_notnull1 = robject(omero.model.ImageI())
object_notnull2 = robject(omero.model.ImageI())
assert object_null1 == object_null2
assert object_null1 == object_null2
assert object_null1 != object_notnull2
assert object_notnull1 == object_notnull1
assert object_notnull1 != object_notnull2
# RString
string_null1 = rstring(None)
string_null2 = rstring(None)
string_notnull1 = rstring("str1")
string_notnull1b = rstring("str1")
string_notnull2 = rstring("str2")
assert string_null1 == string_null2
assert string_null1 == string_null2
assert string_null1 != string_notnull2
assert string_notnull1 == string_notnull1
assert string_notnull1 != string_notnull2
assert string_notnull1 == string_notnull1b
# RClass
class_null1 = rclass(None)
class_null2 = rclass(None)
class_notnull1 = rclass("str1")
class_notnull1b = rclass("str1")
class_notnull2 = rclass("str2")
assert class_null1 == class_null2
assert class_null1 == class_null2
assert class_null1 != class_notnull2
assert class_notnull1 == class_notnull1
assert class_notnull1 != class_notnull2
assert class_notnull1 == class_notnull1b
def test2855MetadataMethods(self):
"""
Tests the various metadata methods for a table
"""
grid = self.client.sf.sharedResources()
table = grid.newTable(1, "/test")
assert table
def clean(m):
"""
Unwraps the RTypes for easier processing
and gets rid of auto-generated values for
easier testing.
"""
m = unwrap(m)
assert "__initialized" in m
assert "__version" in m
del m["__initialized"]
del m["__version"]
return m
try:
print table.getOriginalFile().id.val
lc = columns.LongColumnI('lc', 'desc', [1])
table.initialize([lc])
assert len(clean(table.getAllMetadata())) == 0
# Set a string
table.setMetadata("s", rstring("b"))
assert "b" == unwrap(table.getMetadata("s"))
assert {"s": "b"} == clean(table.getAllMetadata())
# Set an int
table.setMetadata("i", rint(1))
assert 1 == unwrap(table.getMetadata("i"))
assert {"s": "b", "i": 1} == clean(table.getAllMetadata())
# Set a float
table.setMetadata("f", rfloat(1))
assert 1 == unwrap(table.getMetadata("f"))
assert {"s": "b", "i": 1, "f": 1} == clean(table.getAllMetadata())
# Replace all user-metadata
table.setAllMetadata({"s2": rstring("b2"), "l2": rlong(3)})
assert {"s2": "b2", "l2": 3} == clean(table.getAllMetadata())
assert table.getMetadata("s") is None
table.setAllMetadata({})
assert {} == clean(table.getAllMetadata())
table.setMetadata("z", rint(1))
with pytest.raises(omero.ApiUsageException):
table.setMetadata("__z", rint(2))
assert {"z": 1} == clean(table.getAllMetadata())
with pytest.raises(omero.ValidationException):
table.setMetadata("z", rint(None))
finally:
table.delete()
table.close()
def test2855MetadataMethods(self):
"""
Tests the various metadata methods for a table
"""
grid = self.client.sf.sharedResources()
table = grid.newTable(1, "/test")
assert table
def clean(m):
"""
Unwraps the RTypes for easier processing
and gets rid of auto-generated values for
easier testing.
"""
m = unwrap(m)
assert "__initialized" in m
assert "__version" in m
del m["__initialized"]
del m["__version"]
return m
try:
print(table.getOriginalFile().id.val)
lc = columns.LongColumnI('lc', 'desc', [1])
table.initialize([lc])
assert len(clean(table.getAllMetadata())) == 0
# Set a string
table.setMetadata("s", rstring("b"))
assert "b" == unwrap(table.getMetadata("s"))
assert {"s": "b"} == clean(table.getAllMetadata())
# Set an int
table.setMetadata("i", rint(1))
assert 1 == unwrap(table.getMetadata("i"))
assert {"s": "b", "i": 1} == clean(table.getAllMetadata())
# Set a float
table.setMetadata("f", rfloat(1))
assert 1 == unwrap(table.getMetadata("f"))
assert {"s": "b", "i": 1, "f": 1} == clean(table.getAllMetadata())
# Replace all user-metadata
table.setAllMetadata({"s2": rstring("b2"), "l2": rlong(3)})
assert {"s2": "b2", "l2": 3} == clean(table.getAllMetadata())
assert table.getMetadata("s") is None
table.setAllMetadata({})
assert {} == clean(table.getAllMetadata())
table.setMetadata("z", rint(1))
with pytest.raises(omero.ApiUsageException):
table.setMetadata("__z", rint(2))
assert {"z": 1} == clean(table.getAllMetadata())
with pytest.raises(omero.ValidationException):
table.setMetadata("z", rint(None))
finally:
table.delete()
table.close()