sartography
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cr-connect-workflow
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Merge branch 'master' into feature/customer_lookup

This commit is contained in:
Dan Funk 2020-04-15 12:41:35 -04:00 committed by GitHub
parent c485ff5be6 8f0de37011
commit a5f5468e9a
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15 changed files with 261 additions and 156 deletions
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6
Pipfile.lock generated
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@ -241,11 +241,11 @@
},
"docxtpl": {
"hashes": [
"sha256:243722fb7d4e960a1d02a8b177bea62aaba9e4fa5a791bfb47f788aa86167540",
"sha256:fa751b8b0be23fdb2f5e307040c7ea6dbe367b5ed165b70a43ea5ad5ff45bd55"
"sha256:a46c9cd6ea6d7350a8f16b467c3b1cd09767c83e1da5753f306cc550a7b04959",
"sha256:ab92c5710b6774eff52a90529fb96af29aacfc2d14c0986b6f58ac5bfe403bdf"
],
"index": "pypi",
"version": "==0.8.1"
"version": "==0.9.0"
},
"et-xmlfile": {
"hashes": [

26
config/default.py
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@ -1,15 +1,22 @@
import os
from os import environ
basedir = os.path.abspath(os.path.dirname(__file__))
NAME = "CR Connect Workflow"
CORS_ENABLED = False
DEVELOPMENT = True
SQLALCHEMY_DATABASE_URI = "postgresql://crc_user:crc_pass@localhost:5432/crc_dev"
DEVELOPMENT = environ.get('DEVELOPMENT', default="True")
DB_HOST = environ.get('DB_HOST', default="localhost")
DB_PORT = environ.get('DB_PORT', default="5432")
DB_NAME = environ.get('DB_NAME', default="crc_dev")
DB_USER = environ.get('DB_USER', default="crc_user")
DB_PASSWORD = environ.get('DB_PASSWORD', default="crc_pass")
SQLALCHEMY_DATABASE_URI = environ.get('SQLALCHEMY_DATABASE_URI', default="postgresql://%s:%s@%s:%s/%s" % (DB_USER, DB_PASSWORD, DB_HOST, DB_PORT, DB_NAME))
TOKEN_AUTH_TTL_HOURS = 2
TOKEN_AUTH_SECRET_KEY = "Shhhh!!! This is secret! And better darn well not show up in prod."
FRONTEND_AUTH_CALLBACK = "http://localhost:4200/session"
SWAGGER_AUTH_KEY = "SWAGGER"
TOKEN_AUTH_SECRET_KEY = environ.get('TOKEN_AUTH_SECRET_KEY', default="Shhhh!!! This is secret! And better darn well not show up in prod.")
FRONTEND_AUTH_CALLBACK = environ.get('FRONTEND_AUTH_CALLBACK', default="http://localhost:4200/session")
SWAGGER_AUTH_KEY = environ.get('SWAGGER_AUTH_KEY', default="SWAGGER")
#: Default attribute map for single signon.
SSO_ATTRIBUTE_MAP = {
@ -24,7 +31,8 @@ SSO_ATTRIBUTE_MAP = {
}
# %s/%i placeholders expected for uva_id and study_id in various calls.
PB_USER_STUDIES_URL = "http://workflow.sartography.com:5001/pb/user_studies?uva_id=%s"
PB_INVESTIGATORS_URL = "http://workflow.sartography.com:5001/pb/investigators?studyid=%i"
PB_REQUIRED_DOCS_URL = "http://workflow.sartography.com:5001/pb/required_docs?studyid=%i"
PB_STUDY_DETAILS_URL = "http://workflow.sartography.com:5001/pb/study?studyid=%i"
PB_BASE_URL = environ.get('PB_BASE_URL', default="http://localhost:5001/pb/")
PB_USER_STUDIES_URL = environ.get('PB_USER_STUDIES_URL', default=PB_BASE_URL + "user_studies?uva_id=%s")
PB_INVESTIGATORS_URL = environ.get('PB_INVESTIGATORS_URL', default=PB_BASE_URL + "investigators?studyid=%i")
PB_REQUIRED_DOCS_URL = environ.get('PB_REQUIRED_DOCS_URL', default=PB_BASE_URL + "required_docs?studyid=%i")
PB_STUDY_DETAILS_URL = environ.get('PB_STUDY_DETAILS_URL', default=PB_BASE_URL + "study?studyid=%i")

8
crc/static/bpmn/finance/finance.bpmn
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@ -14,13 +14,13 @@
</camunda:formField>
<camunda:formField id="FormField_BudgetDraft" label="Draft Budget" type="file">
<camunda:properties>
<camunda:property id="hide_expression" value="!model.FormField_isBudget" />
<camunda:property id="hide_expression" value="!(model.FormField_isBudget) | FormField_isBudget == null" />
</camunda:properties>
</camunda:formField>
<camunda:formField id="FormField_Budget Final" label="Final Budget" type="file">
<camunda:properties>
<camunda:property id="description" value="This is the budget that you will negotiate with your funding source." />
<camunda:property id="hide_expression" value="!model.FormField_isBudget" />
<camunda:property id="hide_expression" value="!(model.FormField_isBudget) | FormField_isBudget == null" />
</camunda:properties>
</camunda:formField>
</camunda:formData>
@ -54,7 +54,7 @@
<bpmn:sequenceFlow id="SequenceFlow_157c6e9" sourceRef="ExclusiveGateway_0m1n8mu" targetRef="Task_0xn3d6z" />
<bpmn:sequenceFlow id="SequenceFlow_1oh6eq7" sourceRef="ExclusiveGateway_0m1n8mu" targetRef="Task_0dj66yz" />
<bpmn:userTask id="Task_0dj66yz" name="Enter Contract Funded" camunda:formKey="FormKey_ContractFunded">
<bpmn:documentation>#### Process:
<bpmn:documentation>#### Process:
The study team uploads the executed copy of the contract(s) after they receive it from the Office of Grants and Contracts, after the following process components are completed outside of the Clinical Research Connect:
@ -111,7 +111,7 @@ If you have any questions about the process, contact contract negotiator or Offi
<bpmn:documentation>#### Non-Funded Executed Agreement
#### Process:
#### Process:
OGC will upload the Non-Funded Executed Agreement after it has been negotiated by OSP contract negotiator.</bpmn:documentation>
<bpmn:extensionElements>
<camunda:formData>

2
crc/static/bpmn/ids_full_submission/investigators_brochure.dmn
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@ -7,7 +7,7 @@
<decisionTable id="decisionTable_1">
<input id="input_1" label="Investigator&#39;s Brochure Form Upload Count">
<inputExpression id="inputExpression_1" typeRef="integer">
<text>Documents["DrugDevDoc_InvestBrochure"]["count"]</text>
<text>Documents.DrugDevDoc_InvestBrochure.count</text>
</inputExpression>
</input>
<output id="output_1" label="Investigator&#39;s Brochure(s) Uploaded?" name="isInvestigatorsBrochure" typeRef="boolean" />

2
crc/static/bpmn/ids_full_submission/ivrs_iwrs_ixrs.dmn
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@ -7,7 +7,7 @@
<decisionTable id="decisionTable_1">
<input id="input_1" label="IVRS-IWRS-IXRS Manual Count">
<inputExpression id="inputExpression_1" typeRef="integer">
<text>Documents["DrugDevDoc_IVRSIWRSIXRSMan"]["count"]</text>
<text>Documents.DrugDevDoc_IVRSIWRSIXRSMan.count</text>
</inputExpression>
</input>
<output id="output_1" label="IVRS-IWRS-IXRS Manual Uploaded?" name="isIVRS-IWRS-IXRS" typeRef="boolean" />

24
crc/static/bpmn/irb_api_personnel/coordinator_status.dmn Normal file
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@ -0,0 +1,24 @@
<?xml version="1.0" encoding="UTF-8"?>
<definitions xmlns="http://www.omg.org/spec/DMN/20151101/dmn.xsd" xmlns:biodi="http://bpmn.io/schema/dmn/biodi/1.0" id="Definitions_65a4c07" name="DRD" namespace="http://camunda.org/schema/1.0/dmn">
<decision id="Decision_Coordinator" name="Coordinator Status">
<extensionElements>
<biodi:bounds x="200" y="140" width="180" height="80" />
</extensionElements>
<decisionTable id="decisionTable_1">
<input id="input_1" label="Coordinator Status">
<inputExpression id="inputExpression_1" typeRef="boolean">
<text></text>
</inputExpression>
</input>
<output id="output_1" label="Coordinator Form Banner" name="ElementDoc_Coordinator" typeRef="string" />
<rule id="DecisionRule_0sfkgkh">
<inputEntry id="UnaryTests_160rjry">
<text></text>
</inputEntry>
<outputEntry id="LiteralExpression_1lxmr3n">
<text>"Placeholder"</text>
</outputEntry>
</rule>
</decisionTable>
</decision>
</definitions>

24
crc/static/bpmn/irb_api_personnel/department_chair_status.dmn Normal file
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@ -0,0 +1,24 @@
<?xml version="1.0" encoding="UTF-8"?>
<definitions xmlns="http://www.omg.org/spec/DMN/20151101/dmn.xsd" xmlns:biodi="http://bpmn.io/schema/dmn/biodi/1.0" id="Definitions_305b1db" name="DRD" namespace="http://camunda.org/schema/1.0/dmn">
<decision id="Decision_DepartmentChair" name="Department Chair Status">
<extensionElements>
<biodi:bounds x="200" y="150" width="180" height="80" />
</extensionElements>
<decisionTable id="decisionTable_1">
<input id="input_1" label="Department Chair Status">
<inputExpression id="inputExpression_1" typeRef="boolean">
<text></text>
</inputExpression>
</input>
<output id="output_1" label="Department Chair Form Banner" name="ElementDoc_DepartmentChair" typeRef="string" />
<rule id="DecisionRule_1by29jj">
<inputEntry id="UnaryTests_1gr92h8">
<text></text>
</inputEntry>
<outputEntry id="LiteralExpression_0xadafz">
<text>"DC Placeholder"</text>
</outputEntry>
</rule>
</decisionTable>
</decision>
</definitions>

143
crc/static/bpmn/irb_api_personnel/irb_api_personnel.bpmn
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@ -10,14 +10,7 @@
<bpmn:script>StudyInfo investigators</bpmn:script>
</bpmn:scriptTask>
<bpmn:userTask id="UserTask_EditPrimaryInvestigator" name="Edit Primary Investigator" camunda:formKey="PrimaryInvestigator">
<bpmn:documentation>### From Protocol Builder
{% for personnel in study.investigators|selectattr("INVESTIGATORTYPE", "equalto", "PI") %}
#### {{ personnel.INVESTIGATORTYPEFULL }}
{{ personnel.NETBADGEID }}
{% else %}
#### No Primary Investigator Entered in Protocol Builder
The PI is needed for many required steps. Please enter this information in Protocol Builder as soon as possible.
{% endfor %}</bpmn:documentation>
<bpmn:documentation>{{ElementDoc_PrimaryInvestigator}}</bpmn:documentation>
<bpmn:extensionElements>
<camunda:formData>
<camunda:formField id="PI_Experience" label="Investigator&#39;s Experience" type="textarea">
@ -44,7 +37,7 @@ The PI is needed for many required steps. Please enter this information in Prot
<bpmn:sequenceFlow id="SequenceFlow_122pp0f" sourceRef="UserTask_EditPrimaryInvestigator" targetRef="Gateway_19lvya6" />
<bpmn:sequenceFlow id="Flow_0g0o593" sourceRef="Gateway_13kno0x" targetRef="UserTask_EditPrimaryInvestigator" />
<bpmn:parallelGateway id="Gateway_13kno0x">
<bpmn:incoming>Flow_05aywbq</bpmn:incoming>
<bpmn:incoming>Flow_19i1d30</bpmn:incoming>
<bpmn:outgoing>Flow_0g0o593</bpmn:outgoing>
<bpmn:outgoing>Flow_1nudg96</bpmn:outgoing>
<bpmn:outgoing>Flow_18ix81l</bpmn:outgoing>
@ -58,13 +51,6 @@ The PI is needed for many required steps. Please enter this information in Prot
</bpmn:parallelGateway>
<bpmn:sequenceFlow id="Flow_1nudg96" sourceRef="Gateway_13kno0x" targetRef="Activity_EditCoordinator" />
<bpmn:userTask id="Activity_EditCoordinator" name="Edit Coordinator" camunda:formKey="Coordinator">
<bpmn:documentation>### From Protocol Builder
{% for personnel in study.investigators|selectattr("INVESTIGATORTYPE", "equalto", "SC_I") %}
#### {{ personnel.INVESTIGATORTYPEFULL }}
{{ personnel.NETBADGEID }}
{% else %}
#### No Primary Coordinator Entered in Protocol Builder
{% endfor %}</bpmn:documentation>
<bpmn:extensionElements>
<camunda:formData>
<camunda:formField id="CoordinatorI_EditAccess" label="Should this Coordinator have Study Team editing access in the system?" type="boolean" defaultValue="true" />
@ -77,13 +63,6 @@ The PI is needed for many required steps. Please enter this information in Prot
<bpmn:sequenceFlow id="Flow_00lv37g" sourceRef="Activity_EditCoordinator" targetRef="Gateway_19lvya6" />
<bpmn:sequenceFlow id="Flow_18ix81l" sourceRef="Gateway_13kno0x" targetRef="Activity_EditDepartmentChair" />
<bpmn:userTask id="Activity_EditDepartmentChair" name="Edit Department Chair" camunda:formKey="DeptmentChair">
<bpmn:documentation>### From Protocol Builder
{% for personnel in study.investigators|selectattr("INVESTIGATORTYPE", "equalto", "DEPT_CH") %}
#### {{ personnel.INVESTIGATORTYPEFULL }}
{{ personnel.NETBADGEID }}
{% else %}
#### No Department Chair Entered in Protocol Builder
{% endfor %}</bpmn:documentation>
<bpmn:extensionElements>
<camunda:formData>
<camunda:formField id="DepartmentChair_EditAccess" label="Should the Department Chair have Study Team editing access in the system?" type="boolean" defaultValue="false" />
@ -94,74 +73,110 @@ The PI is needed for many required steps. Please enter this information in Prot
<bpmn:outgoing>Flow_0y1jvdw</bpmn:outgoing>
</bpmn:userTask>
<bpmn:sequenceFlow id="Flow_0y1jvdw" sourceRef="Activity_EditDepartmentChair" targetRef="Gateway_19lvya6" />
<bpmn:sequenceFlow id="Flow_05aywbq" sourceRef="ScriptTask_LoadPersonnel" targetRef="Gateway_13kno0x" />
<bpmn:sequenceFlow id="Flow_05aywbq" sourceRef="ScriptTask_LoadPersonnel" targetRef="Activity_PI-Satus" />
<bpmn:sequenceFlow id="Flow_0kcrx5l" sourceRef="StartEvent_1" targetRef="ScriptTask_LoadPersonnel" />
<bpmn:sequenceFlow id="Flow_12rh5aj" sourceRef="Activity_PI-Satus" targetRef="Activity_CoordinatorStatus" />
<bpmn:businessRuleTask id="Activity_PI-Satus" name="Primary Investigator Status" camunda:decisionRef="Decision_PrimaryInvestigator">
<bpmn:incoming>Flow_05aywbq</bpmn:incoming>
<bpmn:outgoing>Flow_12rh5aj</bpmn:outgoing>
</bpmn:businessRuleTask>
<bpmn:sequenceFlow id="Flow_04nzqn8" sourceRef="Activity_CoordinatorStatus" targetRef="Activity_DepartmentChairStatus" />
<bpmn:businessRuleTask id="Activity_CoordinatorStatus" name="Coordinator Status" camunda:decisionRef="Decision_Coordinator">
<bpmn:incoming>Flow_12rh5aj</bpmn:incoming>
<bpmn:outgoing>Flow_04nzqn8</bpmn:outgoing>
</bpmn:businessRuleTask>
<bpmn:sequenceFlow id="Flow_19i1d30" sourceRef="Activity_DepartmentChairStatus" targetRef="Gateway_13kno0x" />
<bpmn:businessRuleTask id="Activity_DepartmentChairStatus" name="Department Chair Status" camunda:decisionRef="Decision_DepartmentChair">
<bpmn:incoming>Flow_04nzqn8</bpmn:incoming>
<bpmn:outgoing>Flow_19i1d30</bpmn:outgoing>
</bpmn:businessRuleTask>
</bpmn:process>
<bpmndi:BPMNDiagram id="BPMNDiagram_1">
<bpmndi:BPMNPlane id="BPMNPlane_1" bpmnElement="Process_01143nb">
<bpmndi:BPMNEdge id="Flow_19i1d30_di" bpmnElement="Flow_19i1d30">
<di:waypoint x="580" y="170" />
<di:waypoint x="645" y="170" />
</bpmndi:BPMNEdge>
<bpmndi:BPMNEdge id="Flow_04nzqn8_di" bpmnElement="Flow_04nzqn8">
<di:waypoint x="440" y="170" />
<di:waypoint x="480" y="170" />
</bpmndi:BPMNEdge>
<bpmndi:BPMNEdge id="Flow_12rh5aj_di" bpmnElement="Flow_12rh5aj">
<di:waypoint x="290" y="170" />
<di:waypoint x="340" y="170" />
</bpmndi:BPMNEdge>
<bpmndi:BPMNEdge id="Flow_0kcrx5l_di" bpmnElement="Flow_0kcrx5l">
<di:waypoint x="168" y="170" />
<di:waypoint x="270" y="170" />
<di:waypoint x="-52" y="170" />
<di:waypoint x="30" y="170" />
</bpmndi:BPMNEdge>
<bpmndi:BPMNEdge id="Flow_05aywbq_di" bpmnElement="Flow_05aywbq">
<di:waypoint x="370" y="170" />
<di:waypoint x="475" y="170" />
<di:waypoint x="130" y="170" />
<di:waypoint x="190" y="170" />
</bpmndi:BPMNEdge>
<bpmndi:BPMNEdge id="Flow_0y1jvdw_di" bpmnElement="Flow_0y1jvdw">
<di:waypoint x="710" y="300" />
<di:waypoint x="810" y="300" />
<di:waypoint x="810" y="195" />
<di:waypoint x="880" y="300" />
<di:waypoint x="980" y="300" />
<di:waypoint x="980" y="195" />
</bpmndi:BPMNEdge>
<bpmndi:BPMNEdge id="Flow_18ix81l_di" bpmnElement="Flow_18ix81l">
<di:waypoint x="500" y="195" />
<di:waypoint x="500" y="300" />
<di:waypoint x="610" y="300" />
<di:waypoint x="670" y="195" />
<di:waypoint x="670" y="300" />
<di:waypoint x="780" y="300" />
</bpmndi:BPMNEdge>
<bpmndi:BPMNEdge id="Flow_00lv37g_di" bpmnElement="Flow_00lv37g">
<di:waypoint x="710" y="170" />
<di:waypoint x="785" y="170" />
<di:waypoint x="880" y="170" />
<di:waypoint x="955" y="170" />
</bpmndi:BPMNEdge>
<bpmndi:BPMNEdge id="Flow_1nudg96_di" bpmnElement="Flow_1nudg96">
<di:waypoint x="525" y="170" />
<di:waypoint x="610" y="170" />
<di:waypoint x="695" y="170" />
<di:waypoint x="780" y="170" />
</bpmndi:BPMNEdge>
<bpmndi:BPMNEdge id="Flow_14469u8_di" bpmnElement="Flow_14469u8">
<di:waypoint x="835" y="170" />
<di:waypoint x="932" y="170" />
<di:waypoint x="1005" y="170" />
<di:waypoint x="1102" y="170" />
</bpmndi:BPMNEdge>
<bpmndi:BPMNEdge id="Flow_0g0o593_di" bpmnElement="Flow_0g0o593">
<di:waypoint x="500" y="145" />
<di:waypoint x="500" y="30" />
<di:waypoint x="610" y="30" />
<di:waypoint x="670" y="145" />
<di:waypoint x="670" y="30" />
<di:waypoint x="780" y="30" />
</bpmndi:BPMNEdge>
<bpmndi:BPMNEdge id="SequenceFlow_122pp0f_di" bpmnElement="SequenceFlow_122pp0f">
<di:waypoint x="710" y="30" />
<di:waypoint x="810" y="30" />
<di:waypoint x="810" y="145" />
<di:waypoint x="880" y="30" />
<di:waypoint x="980" y="30" />
<di:waypoint x="980" y="145" />
</bpmndi:BPMNEdge>
<bpmndi:BPMNShape id="_BPMNShape_StartEvent_2" bpmnElement="StartEvent_1">
<dc:Bounds x="132" y="152" width="36" height="36" />
<dc:Bounds x="-88" y="152" width="36" height="36" />
</bpmndi:BPMNShape>
<bpmndi:BPMNShape id="ScriptTask_0h49cmf_di" bpmnElement="ScriptTask_LoadPersonnel">
<dc:Bounds x="270" y="130" width="100" height="80" />
</bpmndi:BPMNShape>
<bpmndi:BPMNShape id="EndEvent_1qor16n_di" bpmnElement="EndEvent_1qor16n">
<dc:Bounds x="932" y="152" width="36" height="36" />
</bpmndi:BPMNShape>
<bpmndi:BPMNShape id="Gateway_1lvmp6i_di" bpmnElement="Gateway_13kno0x">
<dc:Bounds x="475" y="145" width="50" height="50" />
</bpmndi:BPMNShape>
<bpmndi:BPMNShape id="Gateway_0k9iptd_di" bpmnElement="Gateway_19lvya6">
<dc:Bounds x="785" y="145" width="50" height="50" />
</bpmndi:BPMNShape>
<bpmndi:BPMNShape id="Activity_0d622qi_di" bpmnElement="Activity_EditDepartmentChair">
<dc:Bounds x="610" y="260" width="100" height="80" />
</bpmndi:BPMNShape>
<bpmndi:BPMNShape id="Activity_0fl86y3_di" bpmnElement="Activity_EditCoordinator">
<dc:Bounds x="610" y="130" width="100" height="80" />
<dc:Bounds x="30" y="130" width="100" height="80" />
</bpmndi:BPMNShape>
<bpmndi:BPMNShape id="UserTask_0hpnrm9_di" bpmnElement="UserTask_EditPrimaryInvestigator">
<dc:Bounds x="610" y="-10" width="100" height="80" />
<dc:Bounds x="780" y="-10" width="100" height="80" />
</bpmndi:BPMNShape>
<bpmndi:BPMNShape id="EndEvent_1qor16n_di" bpmnElement="EndEvent_1qor16n">
<dc:Bounds x="1102" y="152" width="36" height="36" />
</bpmndi:BPMNShape>
<bpmndi:BPMNShape id="Gateway_1lvmp6i_di" bpmnElement="Gateway_13kno0x">
<dc:Bounds x="645" y="145" width="50" height="50" />
</bpmndi:BPMNShape>
<bpmndi:BPMNShape id="Gateway_0k9iptd_di" bpmnElement="Gateway_19lvya6">
<dc:Bounds x="955" y="145" width="50" height="50" />
</bpmndi:BPMNShape>
<bpmndi:BPMNShape id="Activity_0fl86y3_di" bpmnElement="Activity_EditCoordinator">
<dc:Bounds x="780" y="130" width="100" height="80" />
</bpmndi:BPMNShape>
<bpmndi:BPMNShape id="Activity_0d622qi_di" bpmnElement="Activity_EditDepartmentChair">
<dc:Bounds x="780" y="260" width="100" height="80" />
</bpmndi:BPMNShape>
<bpmndi:BPMNShape id="Activity_1yggezg_di" bpmnElement="Activity_PI-Satus">
<dc:Bounds x="190" y="130" width="100" height="80" />
</bpmndi:BPMNShape>
<bpmndi:BPMNShape id="Activity_10gqxcp_di" bpmnElement="Activity_CoordinatorStatus">
<dc:Bounds x="340" y="130" width="100" height="80" />
</bpmndi:BPMNShape>
<bpmndi:BPMNShape id="Activity_1g0yuo4_di" bpmnElement="Activity_DepartmentChairStatus">
<dc:Bounds x="480" y="130" width="100" height="80" />
</bpmndi:BPMNShape>
</bpmndi:BPMNPlane>
</bpmndi:BPMNDiagram>

32
crc/static/bpmn/irb_api_personnel/primary_investigator_status.dmn Normal file
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@ -0,0 +1,32 @@
<?xml version="1.0" encoding="UTF-8"?>
<definitions xmlns="http://www.omg.org/spec/DMN/20151101/dmn.xsd" xmlns:biodi="http://bpmn.io/schema/dmn/biodi/1.0" id="Definitions_cc48f13" name="DRD" namespace="http://camunda.org/schema/1.0/dmn">
<decision id="Decision_PrimaryInvestigator" name="Primary Investigator Status">
<extensionElements>
<biodi:bounds x="200" y="160" width="180" height="80" />
</extensionElements>
<decisionTable id="decisionTable_1">
<input id="input_1" label="Primary Investogator Status">
<inputExpression id="inputExpression_1" typeRef="boolean" expressionLanguage="feel">
<text>list contains( for i in [study.investigators[0].INVESTIGATORTYPE, study.investigators[1].INVESTIGATORTYPE, study.investigators[2].INVESTIGATORTYPE] return i, "PI")</text>
</inputExpression>
</input>
<output id="output_1" label="Primary Investigator Form Banner" name="ElementDoc_PrimaryInvestigator" typeRef="string" />
<rule id="DecisionRule_19gl4re">
<inputEntry id="UnaryTests_14311bk">
<text>true</text>
</inputEntry>
<outputEntry id="LiteralExpression_1d3eboq">
<text>"Placeholder - True"</text>
</outputEntry>
</rule>
<rule id="DecisionRule_1crmfau">
<inputEntry id="UnaryTests_110jbd6">
<text>false</text>
</inputEntry>
<outputEntry id="LiteralExpression_107i08h">
<text>"Placeholder - False"</text>
</outputEntry>
</rule>
</decisionTable>
</decision>
</definitions>

6
crc/static/bpmn/top_level_workflow/data_security_plan.dmn
View File

@ -2,12 +2,12 @@
<definitions xmlns="http://www.omg.org/spec/DMN/20151101/dmn.xsd" xmlns:biodi="http://bpmn.io/schema/dmn/biodi/1.0" id="Definitions_1p34ouw" name="DRD" namespace="http://camunda.org/schema/1.0/dmn" exporter="Camunda Modeler" exporterVersion="3.4.1">
<decision id="data_security_plan" name="Data Security Plan">
<extensionElements>
<biodi:bounds x="190" y="80" width="180" height="80" />
<biodi:bounds x="180" y="80" width="180" height="80" />
</extensionElements>
<decisionTable id="DecisionTable_1mjqwlv">
<input id="InputClause_18pwfqu" label="Data Plan Required in PB?">
<input id="InputClause_18pwfqu" label="Required Doc Keys">
<inputExpression id="LiteralExpression_1y84stb" typeRef="boolean" expressionLanguage="feel">
<text>Documents['Study_DataSecurityPlan']['required']</text>
<text>Documents['UVACompl_PRCAppr']['required']</text>
</inputExpression>
</input>
<output id="OutputClause_05y0j7c" label="data_security_plan" name="data_security_plan" typeRef="string" />

2
crc/static/bpmn/top_level_workflow/enter_core_info.dmn
View File

@ -2,7 +2,7 @@
<definitions xmlns="http://www.omg.org/spec/DMN/20151101/dmn.xsd" xmlns:biodi="http://bpmn.io/schema/dmn/biodi/1.0" id="Definitions_1p34ouw" name="DRD" namespace="http://camunda.org/schema/1.0/dmn" exporter="Camunda Modeler" exporterVersion="3.4.1">
<decision id="enter_core_info" name="Enter Core Info">
<extensionElements>
<biodi:bounds x="170" y="60" width="180" height="80" />
<biodi:bounds x="160" y="60" width="180" height="80" />
</extensionElements>
<decisionTable id="decisionTable_1">
<input id="InputClause_1ki80j6" label="required doc ids">

4
crc/static/bpmn/top_level_workflow/sponsor_funding_source.dmn
View File

@ -2,10 +2,10 @@
<definitions xmlns="http://www.omg.org/spec/DMN/20151101/dmn.xsd" xmlns:biodi="http://bpmn.io/schema/dmn/biodi/1.0" id="Definitions_1p34ouw" name="DRD" namespace="http://camunda.org/schema/1.0/dmn" exporter="Camunda Modeler" exporterVersion="3.4.1">
<decision id="sponsor_funding_source" name="Sponsor Funding Source">
<extensionElements>
<biodi:bounds x="190" y="70" width="180" height="80" />
<biodi:bounds x="190" y="80" width="180" height="80" />
</extensionElements>
<decisionTable id="DecisionTable_00zdxg0">
<input id="InputClause_02n3ccs" label="Sponsor Document Required in PB?">
<input id="InputClause_02n3ccs" label="CoCApplication Required?">
<inputExpression id="LiteralExpression_1ju4o1o" typeRef="boolean" expressionLanguage="feel">
<text>Documents['AD_LabManual']['required']</text>
</inputExpression>

118
crc/static/bpmn/top_level_workflow/top_level_workflow.bpmn
View File

@ -60,13 +60,52 @@
</bpmn:process>
<bpmndi:BPMNDiagram id="BPMNDiagram_1">
<bpmndi:BPMNPlane id="BPMNPlane_1" bpmnElement="Process_0jhpidf">
<bpmndi:BPMNShape id="_BPMNShape_StartEvent_2" bpmnElement="StartEvent_1">
<dc:Bounds x="192" y="421" width="36" height="36" />
<bpmndi:BPMNShape id="TextAnnotation_0ydnva4_di" bpmnElement="TextAnnotation_0ydnva4">
<dc:Bounds x="155" y="210" width="110" height="82" />
</bpmndi:BPMNShape>
<bpmndi:BPMNEdge id="Flow_0x9580l_di" bpmnElement="Flow_0x9580l">
<di:waypoint x="740" y="550" />
<di:waypoint x="800" y="550" />
<di:waypoint x="800" y="464" />
</bpmndi:BPMNEdge>
<bpmndi:BPMNEdge id="Flow_1txrak2_di" bpmnElement="Flow_1txrak2">
<di:waypoint x="740" y="439" />
<di:waypoint x="775" y="439" />
</bpmndi:BPMNEdge>
<bpmndi:BPMNEdge id="Flow_1nimppb_di" bpmnElement="Flow_1nimppb">
<di:waypoint x="608" y="439" />
<di:waypoint x="640" y="439" />
</bpmndi:BPMNEdge>
<bpmndi:BPMNEdge id="Flow_18pl92p_di" bpmnElement="Flow_18pl92p">
<di:waypoint x="583" y="464" />
<di:waypoint x="583" y="550" />
<di:waypoint x="640" y="550" />
</bpmndi:BPMNEdge>
<bpmndi:BPMNEdge id="SequenceFlow_17ct47v_di" bpmnElement="SequenceFlow_17ct47v">
<di:waypoint x="400" y="439" />
<di:waypoint x="558" y="439" />
</bpmndi:BPMNEdge>
<bpmndi:BPMNEdge id="Flow_1m8285h_di" bpmnElement="Flow_1m8285h">
<di:waypoint x="583" y="414" />
<di:waypoint x="583" y="330" />
<di:waypoint x="640" y="330" />
</bpmndi:BPMNEdge>
<bpmndi:BPMNEdge id="Flow_0pwtiqm_di" bpmnElement="Flow_0pwtiqm">
<di:waypoint x="825" y="439" />
<di:waypoint x="862" y="439" />
</bpmndi:BPMNEdge>
<bpmndi:BPMNEdge id="Flow_1sggkit_di" bpmnElement="Flow_1sggkit">
<di:waypoint x="740" y="330" />
<di:waypoint x="800" y="330" />
<di:waypoint x="800" y="414" />
</bpmndi:BPMNEdge>
<bpmndi:BPMNEdge id="SequenceFlow_1ees8ka_di" bpmnElement="SequenceFlow_1ees8ka">
<di:waypoint x="228" y="439" />
<di:waypoint x="300" y="439" />
</bpmndi:BPMNEdge>
<bpmndi:BPMNShape id="_BPMNShape_StartEvent_2" bpmnElement="StartEvent_1">
<dc:Bounds x="192" y="421" width="36" height="36" />
</bpmndi:BPMNShape>
<bpmndi:BPMNShape id="Event_135x8jg_di" bpmnElement="Event_135x8jg">
<dc:Bounds x="862" y="421" width="36" height="36" />
</bpmndi:BPMNShape>
@ -76,74 +115,35 @@
<bpmndi:BPMNShape id="Activity_1yqy50i_di" bpmnElement="Activity_1yqy50i">
<dc:Bounds x="640" y="290" width="100" height="80" />
</bpmndi:BPMNShape>
<bpmndi:BPMNShape id="Gateway_1kk6x70_di" bpmnElement="Gateway_12tpgcy">
<dc:Bounds x="775" y="414" width="50" height="50" />
</bpmndi:BPMNShape>
<bpmndi:BPMNShape id="Gateway_1m22g4p_di" bpmnElement="Gateway_1nta7st">
<dc:Bounds x="558" y="414" width="50" height="50" />
</bpmndi:BPMNShape>
<bpmndi:BPMNShape id="Activity_1k5eeun_di" bpmnElement="Activity_1k5eeun">
<dc:Bounds x="640" y="399" width="100" height="80" />
</bpmndi:BPMNShape>
<bpmndi:BPMNShape id="Activity_16cm213_di" bpmnElement="Activity_16cm213">
<dc:Bounds x="640" y="510" width="100" height="80" />
</bpmndi:BPMNShape>
<bpmndi:BPMNShape id="TextAnnotation_1pv8ygy_di" bpmnElement="TextAnnotation_1pv8ygy">
<dc:Bounds x="300" y="247" width="100" height="68" />
</bpmndi:BPMNShape>
<bpmndi:BPMNShape id="TextAnnotation_1f52jro_di" bpmnElement="TextAnnotation_1f52jro">
<dc:Bounds x="461" y="80" width="243" height="124" />
</bpmndi:BPMNShape>
<bpmndi:BPMNEdge id="Association_0w69z3w_di" bpmnElement="Association_0w69z3w">
<di:waypoint x="350" y="399" />
<di:waypoint x="350" y="315" />
</bpmndi:BPMNEdge>
<bpmndi:BPMNShape id="TextAnnotation_0ydnva4_di" bpmnElement="TextAnnotation_0ydnva4">
<dc:Bounds x="155" y="220" width="110" height="82" />
</bpmndi:BPMNShape>
<bpmndi:BPMNEdge id="Association_0a41ixa_di" bpmnElement="Association_0a41ixa">
<di:waypoint x="210" y="421" />
<di:waypoint x="210" y="302" />
</bpmndi:BPMNEdge>
<bpmndi:BPMNShape id="TextAnnotation_1f52jro_di" bpmnElement="TextAnnotation_1f52jro">
<dc:Bounds x="461" y="80" width="243" height="124" />
</bpmndi:BPMNShape>
<bpmndi:BPMNEdge id="Flow_1sggkit_di" bpmnElement="Flow_1sggkit">
<di:waypoint x="740" y="330" />
<di:waypoint x="800" y="330" />
<di:waypoint x="800" y="414" />
</bpmndi:BPMNEdge>
<bpmndi:BPMNShape id="Gateway_1kk6x70_di" bpmnElement="Gateway_12tpgcy">
<dc:Bounds x="775" y="414" width="50" height="50" />
</bpmndi:BPMNShape>
<bpmndi:BPMNEdge id="Flow_0pwtiqm_di" bpmnElement="Flow_0pwtiqm">
<di:waypoint x="825" y="439" />
<di:waypoint x="862" y="439" />
</bpmndi:BPMNEdge>
<bpmndi:BPMNShape id="Gateway_1m22g4p_di" bpmnElement="Gateway_1nta7st">
<dc:Bounds x="558" y="414" width="50" height="50" />
</bpmndi:BPMNShape>
<bpmndi:BPMNEdge id="Association_1mzqzwj_di" bpmnElement="Association_1mzqzwj">
<di:waypoint x="583" y="414" />
<di:waypoint x="583" y="204" />
</bpmndi:BPMNEdge>
<bpmndi:BPMNEdge id="Flow_1m8285h_di" bpmnElement="Flow_1m8285h">
<di:waypoint x="583" y="414" />
<di:waypoint x="583" y="330" />
<di:waypoint x="640" y="330" />
</bpmndi:BPMNEdge>
<bpmndi:BPMNEdge id="SequenceFlow_17ct47v_di" bpmnElement="SequenceFlow_17ct47v">
<di:waypoint x="400" y="439" />
<di:waypoint x="558" y="439" />
</bpmndi:BPMNEdge>
<bpmndi:BPMNEdge id="Flow_18pl92p_di" bpmnElement="Flow_18pl92p">
<di:waypoint x="583" y="464" />
<di:waypoint x="583" y="550" />
<di:waypoint x="640" y="550" />
</bpmndi:BPMNEdge>
<bpmndi:BPMNEdge id="Flow_1nimppb_di" bpmnElement="Flow_1nimppb">
<di:waypoint x="608" y="439" />
<di:waypoint x="640" y="439" />
</bpmndi:BPMNEdge>
<bpmndi:BPMNShape id="Activity_1k5eeun_di" bpmnElement="Activity_1k5eeun">
<dc:Bounds x="640" y="399" width="100" height="80" />
</bpmndi:BPMNShape>
<bpmndi:BPMNEdge id="Flow_1txrak2_di" bpmnElement="Flow_1txrak2">
<di:waypoint x="740" y="439" />
<di:waypoint x="775" y="439" />
</bpmndi:BPMNEdge>
<bpmndi:BPMNShape id="Activity_16cm213_di" bpmnElement="Activity_16cm213">
<dc:Bounds x="640" y="510" width="100" height="80" />
</bpmndi:BPMNShape>
<bpmndi:BPMNEdge id="Flow_0x9580l_di" bpmnElement="Flow_0x9580l">
<di:waypoint x="740" y="550" />
<di:waypoint x="800" y="550" />
<di:waypoint x="800" y="464" />
<bpmndi:BPMNEdge id="Association_0a41ixa_di" bpmnElement="Association_0a41ixa">
<di:waypoint x="210" y="421" />
<di:waypoint x="210" y="292" />
</bpmndi:BPMNEdge>
</bpmndi:BPMNPlane>
</bpmndi:BPMNDiagram>

15
example_data.py
View File

@ -65,13 +65,6 @@ class ExampleDataLoader:
]
db.session.add_all(categories)
db.session.commit()
self.create_spec(id="top_level_workflow",
name="top_level_workflow",
display_name="Top Level Workflow",
description="Determines the status of other workflows in a study",
category_id=None,
master_spec=True
)
# Pass IRB Review
self.create_spec(id="irb_api_personnel",
@ -163,6 +156,14 @@ class ExampleDataLoader:
category_id=5,
display_order=0)
# Top Level (Master Status) Workflow
self.create_spec(id="top_level_workflow",
name="top_level_workflow",
display_name="Top Level Workflow",
description="Determines the status of other workflows in a study",
category_id=None,
master_spec=True)
def create_spec(self, id, name, display_name="", description="", filepath=None, master_spec=False, category_id=None, display_order=None):
"""Assumes that a directory exists in static/bpmn with the same name as the given id.

5
tests/test_files_api.py
View File

@ -14,8 +14,9 @@ class TestFilesApi(BaseTest):
def test_list_files_for_workflow_spec(self):
self.load_example_data()
spec = session.query(WorkflowSpecModel).first()
rv = self.app.get('/v1.0/file?workflow_spec_id=%s' % spec.id,
spec_id = 'core_info'
spec = session.query(WorkflowSpecModel).filter_by(id=spec_id).first()
rv = self.app.get('/v1.0/file?workflow_spec_id=%s' % spec_id,
follow_redirects=True,
content_type="application/json", headers=self.logged_in_headers())
self.assert_success(rv)