def test_is_pathogenic_2():
"""First criterias for pathogenic:
Pathogenic
(ii) ≥2 Strong (PS1–PS4) OR
"""
# GIVEN values that fulfill the (ii) criteria for pathogenic
pvs = False
ps_terms = ["PS1", "PS2"]
pm_terms = []
pp_terms = []
## WHEN performing the evaluation
res = is_pathogenic(pvs, ps_terms, pm_terms, pp_terms)
## THEN assert the criterias are fullfilled
assert res
ps_terms = ["PS1"]
## WHEN performing the evaluation wit only one strong term
res = is_pathogenic(pvs, ps_terms, pm_terms, pp_terms)
## THEN assert the criterias are not fullfilled
assert not res
def test_is_pathogenic_2():
"""First criterias for pathogenic:
Pathogenic
(ii) ≥2 Strong (PS1–PS4) OR
"""
# GIVEN values that fulfill the (ii) criteria for pathogenic
pvs = False
ps_terms = ['PS1', 'PS2']
pm_terms = []
pp_terms = []
## WHEN performing the evaluation
res = is_pathogenic(pvs, ps_terms, pm_terms, pp_terms)
## THEN assert the criterias are fullfilled
assert res
ps_terms = ['PS1']
## WHEN performing the evaluation wit only one strong term
res = is_pathogenic(pvs, ps_terms, pm_terms, pp_terms)
## THEN assert the criterias are not fullfilled
assert not res
def test_is_pathogenic_3():
"""First criterias for pathogenic:
Pathogenic
(iii) 1 Strong (PS1–PS4) AND
(a)≥3 Moderate (PM1–PM6) OR
(b)2 Moderate (PM1–PM6) AND ≥2 Supporting (PP1–PP5) OR
(c)1 Moderate (PM1–PM6) AND ≥4 supporting (PP1–PP5)
"""
# GIVEN values that fulfill the (a) criteria for pathogenic (iii)
pvs = False
ps_terms = ["PS1"]
pm_terms = ["PM1", "PM2", "PM3"]
pp_terms = []
## WHEN performing the evaluation
res = is_pathogenic(pvs, ps_terms, pm_terms, pp_terms)
## THEN assert the criterias are fullfilled
assert res
pm_terms = ["PM1", "PM2"]
## WHEN performing the evaluation wit only two moderate terms
res = is_pathogenic(pvs, ps_terms, pm_terms, pp_terms)
## THEN assert the criterias are not fullfilled
assert not res
# GIVEN values that fulfill the (b) criteria for pathogenic (iii)
pvs = False
ps_terms = ["PS1"]
pm_terms = ["PM1", "PM2"]
pp_terms = ["PP1", "PP2"]
## WHEN performing the evaluation
res = is_pathogenic(pvs, ps_terms, pm_terms, pp_terms)
## THEN assert the criterias are fullfilled
assert res
pp_terms = ["PP1"]
## WHEN performing the evaluation with only one supporting terms
res = is_pathogenic(pvs, ps_terms, pm_terms, pp_terms)
## THEN assert the criterias are not fullfilled
assert not res
# GIVEN values that fulfill the (c) criteria for pathogenic (iii)
pvs = False
ps_terms = ["PS1"]
pm_terms = ["PM1"]
pp_terms = ["PP1", "PP2", "PP3", "PP4"]
## WHEN performing the evaluation
res = is_pathogenic(pvs, ps_terms, pm_terms, pp_terms)
## THEN assert the criterias are fullfilled
assert res
pp_terms = ["PP1", "PP2", "PP3"]
## WHEN performing the evaluation with only three supporting terms
res = is_pathogenic(pvs, ps_terms, pm_terms, pp_terms)
## THEN assert the criterias are not fullfilled
assert not res
def test_is_pathogenic_3():
"""First criterias for pathogenic:
Pathogenic
(iii) 1 Strong (PS1–PS4) AND
(a)≥3 Moderate (PM1–PM6) OR
(b)2 Moderate (PM1–PM6) AND ≥2 Supporting (PP1–PP5) OR
(c)1 Moderate (PM1–PM6) AND ≥4 supporting (PP1–PP5)
"""
# GIVEN values that fulfill the (a) criteria for pathogenic (iii)
pvs = False
ps_terms = ['PS1']
pm_terms = ['PM1', 'PM2', 'PM3']
pp_terms = []
## WHEN performing the evaluation
res = is_pathogenic(pvs, ps_terms, pm_terms, pp_terms)
## THEN assert the criterias are fullfilled
assert res
pm_terms = ['PM1', 'PM2']
## WHEN performing the evaluation wit only two moderate terms
res = is_pathogenic(pvs, ps_terms, pm_terms, pp_terms)
## THEN assert the criterias are not fullfilled
assert not res
# GIVEN values that fulfill the (b) criteria for pathogenic (iii)
pvs = False
ps_terms = ['PS1']
pm_terms = ['PM1', 'PM2']
pp_terms = ['PP1', 'PP2']
## WHEN performing the evaluation
res = is_pathogenic(pvs, ps_terms, pm_terms, pp_terms)
## THEN assert the criterias are fullfilled
assert res
pp_terms = ['PP1']
## WHEN performing the evaluation with only one supporting terms
res = is_pathogenic(pvs, ps_terms, pm_terms, pp_terms)
## THEN assert the criterias are not fullfilled
assert not res
# GIVEN values that fulfill the (c) criteria for pathogenic (iii)
pvs = False
ps_terms = ['PS1']
pm_terms = ['PM1']
pp_terms = ['PP1', 'PP2', 'PP3', 'PP4']
## WHEN performing the evaluation
res = is_pathogenic(pvs, ps_terms, pm_terms, pp_terms)
## THEN assert the criterias are fullfilled
assert res
pp_terms = ['PP1', 'PP2', 'PP3']
## WHEN performing the evaluation with only three supporting terms
res = is_pathogenic(pvs, ps_terms, pm_terms, pp_terms)
## THEN assert the criterias are not fullfilled
assert not res
def test_is_pathogenic_1():
"""First criterias for pathogenic:
Pathogenic
(i) 1 Very strong (PVS1) AND
(a) ≥1 Strong (PS1–PS4) OR
(b) ≥2 Moderate (PM1–PM6) OR
(c) 1 Moderate (PM1–PM6) and 1 supporting (PP1–PP5) OR
(d) ≥2 Supporting (PP1–PP5)
"""
# GIVEN values that fulfill the (a) criteria for pathogenic
pvs = True
ps_terms = ["PS1"]
pm_terms = []
pp_terms = []
## WHEN performing the evaluation
res = is_pathogenic(pvs, ps_terms, pm_terms, pp_terms)
## THEN assert the criterias are fullfilled
assert res
ps_terms = []
res = is_pathogenic(pvs, ps_terms, pm_terms, pp_terms)
assert not res
ps_terms = ["PS1", "PS2"]
res = is_pathogenic(pvs, ps_terms, pm_terms, pp_terms)
assert res
# GIVEN values that fulfill the (b) criteria for pathogenic
pvs = True
ps_terms = []
pm_terms = ["PM1", "PM2"]
pp_terms = []
## WHEN performing the evaluation
res = is_pathogenic(pvs, ps_terms, pm_terms, pp_terms)
## THEN assert the criterias are fullfilled
assert res
## GIVEN one to few moderate terms
pm_terms = ["PM2"]
## WHEN performing the evaluation
res = is_pathogenic(pvs, ps_terms, pm_terms, pp_terms)
## THEN assert the criterias are not fullfilled
assert not res
# GIVEN values that fulfill the (c) criteria for pathogenic
pvs = True
ps_terms = []
pm_terms = ["PM1"]
pp_terms = ["PP1"]
## WHEN performing the evaluation
res = is_pathogenic(pvs, ps_terms, pm_terms, pp_terms)
## THEN assert the criterias are fullfilled
assert res
# GIVEN values that fulfill the (d) criteria for pathogenic
pvs = True
ps_terms = []
pm_terms = []
pp_terms = ["PP1", "PP2"]
## WHEN performing the evaluation
res = is_pathogenic(pvs, ps_terms, pm_terms, pp_terms)
## THEN assert the criterias are fullfilled
assert res
## GIVEN pvs and one supporting term
pp_terms = ["PP1"]
## WHEN performing the evaluation
res = is_pathogenic(pvs, ps_terms, pm_terms, pp_terms)
## THEN assert the criterias are not fullfilled
assert not res
def test_is_pathogenic_1():
"""First criterias for pathogenic:
Pathogenic
(i) 1 Very strong (PVS1) AND
(a) ≥1 Strong (PS1–PS4) OR
(b) ≥2 Moderate (PM1–PM6) OR
(c) 1 Moderate (PM1–PM6) and 1 supporting (PP1–PP5) OR
(d) ≥2 Supporting (PP1–PP5)
"""
# GIVEN values that fulfill the (a) criteria for pathogenic
pvs = True
ps_terms = ['PS1']
pm_terms = []
pp_terms = []
## WHEN performing the evaluation
res = is_pathogenic(pvs, ps_terms, pm_terms, pp_terms)
## THEN assert the criterias are fullfilled
assert res
ps_terms = []
res = is_pathogenic(pvs, ps_terms, pm_terms, pp_terms)
assert not res
ps_terms = ['PS1', 'PS2']
res = is_pathogenic(pvs, ps_terms, pm_terms, pp_terms)
assert res
# GIVEN values that fulfill the (b) criteria for pathogenic
pvs = True
ps_terms = []
pm_terms = ['PM1', 'PM2']
pp_terms = []
## WHEN performing the evaluation
res = is_pathogenic(pvs, ps_terms, pm_terms, pp_terms)
## THEN assert the criterias are fullfilled
assert res
## GIVEN one to few moderate terms
pm_terms = ['PM2']
## WHEN performing the evaluation
res = is_pathogenic(pvs, ps_terms, pm_terms, pp_terms)
## THEN assert the criterias are not fullfilled
assert not res
# GIVEN values that fulfill the (c) criteria for pathogenic
pvs = True
ps_terms = []
pm_terms = ['PM1']
pp_terms = ['PP1']
## WHEN performing the evaluation
res = is_pathogenic(pvs, ps_terms, pm_terms, pp_terms)
## THEN assert the criterias are fullfilled
assert res
# GIVEN values that fulfill the (d) criteria for pathogenic
pvs = True
ps_terms = []
pm_terms = []
pp_terms = ['PP1', 'PP2']
## WHEN performing the evaluation
res = is_pathogenic(pvs, ps_terms, pm_terms, pp_terms)
## THEN assert the criterias are fullfilled
assert res
## GIVEN pvs and one supporting term
pp_terms = ['PP1']
## WHEN performing the evaluation
res = is_pathogenic(pvs, ps_terms, pm_terms, pp_terms)
## THEN assert the criterias are not fullfilled
assert not res