diff --git a/backend/app/schemas/acmgseqvar.py b/backend/app/schemas/acmgseqvar.py
index e26f6c33..e0d084e8 100644
--- a/backend/app/schemas/acmgseqvar.py
+++ b/backend/app/schemas/acmgseqvar.py
@@ -37,7 +37,6 @@ class Criteria(str, Enum):
PP2 = "PP2"
PP3 = "PP3"
PP4 = "PP4"
- PP5 = "PP5"
BA1 = "BA1"
BS1 = "BS1"
BS2 = "BS2"
@@ -48,7 +47,6 @@ class Criteria(str, Enum):
BP3 = "BP3"
BP4 = "BP4"
BP5 = "BP5"
- BP6 = "BP6"
BP7 = "BP7"
diff --git a/frontend/src/assets/__tests__/ExampleAcmgSeqVarRank.json b/frontend/src/assets/__tests__/ExampleAcmgSeqVarRank.json
index 845d0bb4..991bc536 100644
--- a/frontend/src/assets/__tests__/ExampleAcmgSeqVarRank.json
+++ b/frontend/src/assets/__tests__/ExampleAcmgSeqVarRank.json
@@ -1,3 +1,3 @@
version https://git-lfs.github.com/spec/v1
-oid sha256:fabfab448a093134cbcc67b818bd83cccf9086d04092baa59eb16ec1436daf58
-size 3419
+oid sha256:0736ddc640684c40080cd4c0284f43336cc44dda7cf08b33573f6b5645f3e68b
+size 3187
diff --git a/frontend/src/components/__tests__/SeqvarDetails/ClinsigCard.spec.ts b/frontend/src/components/__tests__/SeqvarDetails/ClinsigCard.spec.ts
index d3ec0c42..d68a7571 100644
--- a/frontend/src/components/__tests__/SeqvarDetails/ClinsigCard.spec.ts
+++ b/frontend/src/components/__tests__/SeqvarDetails/ClinsigCard.spec.ts
@@ -61,7 +61,7 @@ describe.concurrent('AcmgRating', async () => {
const summarySheet = wrapper.findComponent(SummarySheet)
expect(summarySheet.exists()).toBe(true)
const switchers = wrapper.findAllComponents({ name: 'CriterionSwitch' })
- expect(switchers.length).toBe(56)
+ expect(switchers.length).toBe(52)
// click show failed button
const btnShowFailed = wrapper.findAll('.show-failed')
diff --git a/frontend/src/lib/__tests__/acmgSeqVar.spec.ts b/frontend/src/lib/__tests__/acmgSeqVar.spec.ts
index 11c11a62..ad139553 100644
--- a/frontend/src/lib/__tests__/acmgSeqVar.spec.ts
+++ b/frontend/src/lib/__tests__/acmgSeqVar.spec.ts
@@ -19,19 +19,19 @@ describe.concurrent('MultiSourceAcmgCriteriaState', () => {
expect(AcmgCriteriaState.criteriaStates).toHaveProperty(StateSource.User)
// Check keys of AcmgCriteriaState.criteriaStates[StateSource.Default]
- expect(Object.keys(AcmgCriteriaState.criteriaStates[StateSource.Default]).length).toEqual(28)
+ expect(Object.keys(AcmgCriteriaState.criteriaStates[StateSource.Default]).length).toEqual(26)
expect(AcmgCriteriaState.criteriaStates[StateSource.Default]).toHaveProperty(AcmgCriteria.PVS1)
// Check keys of AcmgCriteriaState.criteriaStates[StateSource.InterVar]
- expect(Object.keys(AcmgCriteriaState.criteriaStates[StateSource.InterVar]).length).toEqual(28)
+ expect(Object.keys(AcmgCriteriaState.criteriaStates[StateSource.InterVar]).length).toEqual(26)
expect(AcmgCriteriaState.criteriaStates[StateSource.InterVar]).toHaveProperty(AcmgCriteria.PVS1)
// Check keys of AcmgCriteriaState.criteriaStates[StateSource.Server]
- expect(Object.keys(AcmgCriteriaState.criteriaStates[StateSource.Server]).length).toEqual(28)
+ expect(Object.keys(AcmgCriteriaState.criteriaStates[StateSource.Server]).length).toEqual(26)
expect(AcmgCriteriaState.criteriaStates[StateSource.Server]).toHaveProperty(AcmgCriteria.PVS1)
// Check keys of AcmgCriteriaState.criteriaStates[StateSource.User]
- expect(Object.keys(AcmgCriteriaState.criteriaStates[StateSource.User]).length).toEqual(28)
+ expect(Object.keys(AcmgCriteriaState.criteriaStates[StateSource.User]).length).toEqual(26)
expect(AcmgCriteriaState.criteriaStates[StateSource.User]).toHaveProperty(AcmgCriteria.PVS1)
})
@@ -319,19 +319,19 @@ describe.concurrent('MultiSourceAcmgCriteriaState', () => {
expect(criteriaStates).toHaveProperty(StateSource.User)
// Check keys of AcmgCriteriaState.criteriaStates[StateSource.Default]
- expect(Object.keys(criteriaStates[StateSource.Default]).length).toEqual(28)
+ expect(Object.keys(criteriaStates[StateSource.Default]).length).toEqual(26)
expect(criteriaStates[StateSource.Default]).toHaveProperty(AcmgCriteria.PVS1)
// Check keys of AcmgCriteriaState.criteriaStates[StateSource.InterVar]
- expect(Object.keys(criteriaStates[StateSource.InterVar]).length).toEqual(28)
+ expect(Object.keys(criteriaStates[StateSource.InterVar]).length).toEqual(26)
expect(criteriaStates[StateSource.InterVar]).toHaveProperty(AcmgCriteria.PVS1)
// Check keys of AcmgCriteriaState.criteriaStates[StateSource.Server]
- expect(Object.keys(criteriaStates[StateSource.Server]).length).toEqual(28)
+ expect(Object.keys(criteriaStates[StateSource.Server]).length).toEqual(26)
expect(criteriaStates[StateSource.Server]).toHaveProperty(AcmgCriteria.PVS1)
// Check keys of AcmgCriteriaState.criteriaStates[StateSource.User]
- expect(Object.keys(criteriaStates[StateSource.User]).length).toEqual(28)
+ expect(Object.keys(criteriaStates[StateSource.User]).length).toEqual(26)
expect(criteriaStates[StateSource.User]).toHaveProperty(AcmgCriteria.PVS1)
})
diff --git a/frontend/src/lib/acmgSeqVar.ts b/frontend/src/lib/acmgSeqVar.ts
index f173528e..c112e466 100644
--- a/frontend/src/lib/acmgSeqVar.ts
+++ b/frontend/src/lib/acmgSeqVar.ts
@@ -42,7 +42,6 @@ enum AcmgCriteria {
PP2 = 'PP2',
PP3 = 'PP3',
PP4 = 'PP4',
- PP5 = 'PP5',
BA1 = 'BA1',
BS1 = 'BS1',
BS2 = 'BS2',
@@ -53,7 +52,6 @@ enum AcmgCriteria {
BP3 = 'BP3',
BP4 = 'BP4',
BP5 = 'BP5',
- BP6 = 'BP6',
BP7 = 'BP7'
}
@@ -74,7 +72,6 @@ const ALL_ACMG_CRITERIA = [
AcmgCriteria.PP2,
AcmgCriteria.PP3,
AcmgCriteria.PP4,
- AcmgCriteria.PP5,
AcmgCriteria.BA1,
AcmgCriteria.BS1,
AcmgCriteria.BS2,
@@ -85,7 +82,6 @@ const ALL_ACMG_CRITERIA = [
AcmgCriteria.BP3,
AcmgCriteria.BP4,
AcmgCriteria.BP5,
- AcmgCriteria.BP6,
AcmgCriteria.BP7
]
@@ -224,15 +220,6 @@ const ACMG_CRITERIA_DEFS: Map
Hint: Phenotype/pedigree match gene
-- Description: Reputable source recently reports variant as pathogenic, but the - evidence is not available to the laboratory to perform an independent evaluation. - Note: Not recommended to use anymore, use PS3 and PS4 at different levels of - evidence. -
-Hint: Reliable source: pathogenic
-Hint: Different gene in other case
-- Description: Reputable source recently reports variant as benign, but the evidence - is not available to the laboratory to perform an independent evaluation -
-Hint: Reputable source: benign
-diff --git a/frontend/src/views/__tests__/ACMGCriteriaDoc.spec.ts b/frontend/src/views/__tests__/ACMGCriteriaDoc.spec.ts index 3debbe1f..fa6d62bb 100644 --- a/frontend/src/views/__tests__/ACMGCriteriaDoc.spec.ts +++ b/frontend/src/views/__tests__/ACMGCriteriaDoc.spec.ts @@ -40,6 +40,6 @@ describe.concurrent('ACMGCriteriaDocs', async () => { expect(mainContent.exists()).toBe(true) expect(mainContent.html()).toMatch('PVS1') expect(mainContent.html()).toMatch('Benign Criteria') - expect(mainContent.html()).toMatch('BP6') + expect(mainContent.html()).toMatch('BP1') }) })