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Merge pull request #383 from icgc-argo/358_ltf
Added optional field in Donor schema for lost to follow up
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/* | ||
* Copyright (c) 2023 The Ontario Institute for Cancer Research. All rights reserved | ||
* | ||
* This program and the accompanying materials are made available under the terms of the GNU Affero General Public License v3.0. | ||
* You should have received a copy of the GNU Affero General Public License along with | ||
* this program. If not, see <http://www.gnu.org/licenses/>. | ||
* | ||
* THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY | ||
* EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES | ||
* OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT | ||
* SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, | ||
* INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED | ||
* TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; | ||
* OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER | ||
* IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN | ||
* ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. | ||
* | ||
* | ||
*/ | ||
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/** | ||
* The lost_to_followup_after_clinical_event_id field should only be submitted if vital_status is Alive. It should not be allowed to be submitted if vital_status is Deceased. | ||
*/ | ||
const validation = () => | ||
(function validate(inputs) { | ||
const {$row, $name, $field} = inputs; | ||
let result = {valid: true, message: "Ok"}; | ||
const currField = typeof($field) === 'string' ? $field.trim().toLowerCase() : $field; | ||
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/* checks for a string just consisting of whitespace */ | ||
const checkforEmpty = (entry) => {return /^\s+$/g.test(decodeURI(entry).replace(/^"(.*)"$/, '$1'))}; | ||
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if (currField != null && !(checkforEmpty(currField))) { | ||
const vitalStatus = $row.vital_status.trim().toLowerCase(); | ||
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if (vitalStatus === "deceased") { | ||
result = {valid: false, message: `${$name} cannot be submitted if the donor's vital_status is deceased.`} | ||
} | ||
} | ||
return result; | ||
}); | ||
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module.exports = validation; |
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/* | ||
* Copyright (c) 2020 The Ontario Institute for Cancer Research. All rights reserved | ||
* | ||
* This program and the accompanying materials are made available under the terms of the GNU Affero General Public License v3.0. | ||
* You should have received a copy of the GNU Affero General Public License along with | ||
* this program. If not, see <http://www.gnu.org/licenses/>. | ||
* | ||
* THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY | ||
* EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES | ||
* OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT | ||
* SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, | ||
* INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED | ||
* TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; | ||
* OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER | ||
* IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN | ||
* ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. | ||
* | ||
* | ||
*/ | ||
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const validation = require('./../../references/validationFunctions/donor/lost_to_followup.js'); | ||
const universalTest = require('../universal'); | ||
const loadObjects = require('../loadObjects'); | ||
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// load in all fields with entries prepopulated to null | ||
const donor = require('../constructDummyData').getSchemaDummy('donor'); | ||
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const myUnitTests = { | ||
"lost_to_followup_after_clinical_event_id": [ | ||
[ | ||
'Alive donor with lost to follow up indicated.', | ||
true, | ||
loadObjects(donor, | ||
{ | ||
"vital_status": "alive", | ||
"lost_to_followup_after_clinical_event_id": "PD1" | ||
} | ||
) | ||
], | ||
[ | ||
'Lost to follow up indicated when donor is known to be deceased.', | ||
false, | ||
loadObjects(donor, | ||
{ | ||
"vital_status": "deceased", | ||
"lost_to_followup_after_clinical_event_id" : "Tr-1" | ||
} | ||
) | ||
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] | ||
] | ||
}; | ||
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describe("Common Tests",()=>{ | ||
Object.entries(myUnitTests).forEach(field =>{ | ||
const name = field[0]; | ||
const unitTests = field[1]; | ||
unitTests.forEach(test=>{ | ||
const testIndex = 2; | ||
const testInputs = test[testIndex]; | ||
universalTest(validation()({ $row: testInputs, $name: name, $field: testInputs[name]})); | ||
}) | ||
}) | ||
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}) | ||
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describe("Unit Tests for Lost to follow up",()=>{ | ||
Object.entries(myUnitTests).forEach(field => { | ||
const name = field[0]; | ||
const unitTests = field[1]; | ||
describe(`Tests for the ${name} field.`,() => { | ||
test.each(unitTests)('\n Test %# : %s \nExpecting result.valid to be: %s',(description,target,inputs) =>{ | ||
const scriptOutput = validation()({ $row: inputs, $field: inputs[name], $name: name}); | ||
expect(scriptOutput.valid).toBe(target); | ||
}) | ||
}) | ||
}) | ||
}) | ||
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