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Update Phi-Annotator-App to API version 1.2.0 (#99)
* Update Example Env File * Update `physical-annotator` to `location-annotator` * Update `phi-deidentifier` to `phi-deidentifier-example` * Point phi-deidentifier Image Link to Correct URL * Bump eslint from 7.28.0 to 7.32.0 in /client Bumps [eslint](https://github.com/eslint/eslint) from 7.28.0 to 7.32.0. - [Release notes](https://github.com/eslint/eslint/releases) - [Changelog](https://github.com/eslint/eslint/blob/master/CHANGELOG.md) - [Commits](eslint/eslint@v7.28.0...v7.32.0) --- updated-dependencies: - dependency-name: eslint dependency-type: direct:development update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <[email protected]> * Bump eslint from 7.28.0 to 7.32.0 in /client Bumps [eslint](https://github.com/eslint/eslint) from 7.28.0 to 7.32.0. - [Release notes](https://github.com/eslint/eslint/releases) - [Changelog](https://github.com/eslint/eslint/blob/master/CHANGELOG.md) - [Commits](eslint/eslint@v7.28.0...v7.32.0) --- updated-dependencies: - dependency-name: eslint dependency-type: direct:development update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <[email protected]> * PHYSICAL_ADDRESS -> LOCATION * Regenerate Client from updated API Spec * "Physical Address" -> "Location" in Web Client * "Physical Address" -> "Location" in docker-compose.yml * Bump Web Client Version Number * Copy Just Necessary Files in Dockerfile * Bump @typescript-eslint/eslint-plugin from 4.26.0 to 4.28.5 in /client (#110) Bumps [@typescript-eslint/eslint-plugin](https://github.com/typescript-eslint/typescript-eslint/tree/HEAD/packages/eslint-plugin) from 4.26.0 to 4.28.5. - [Release notes](https://github.com/typescript-eslint/typescript-eslint/releases) - [Changelog](https://github.com/typescript-eslint/typescript-eslint/blob/master/packages/eslint-plugin/CHANGELOG.md) - [Commits](https://github.com/typescript-eslint/typescript-eslint/commits/v4.28.5/packages/eslint-plugin) --- updated-dependencies: - dependency-name: "@typescript-eslint/eslint-plugin" dependency-type: direct:development update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <[email protected]> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * Bump @openapitools/openapi-generator-cli from 2.3.3 to 2.3.9 (#108) Bumps [@openapitools/openapi-generator-cli](https://github.com/OpenAPITools/openapi-generator-cli) from 2.3.3 to 2.3.9. - [Release notes](https://github.com/OpenAPITools/openapi-generator-cli/releases) - [Changelog](https://github.com/OpenAPITools/openapi-generator-cli/blob/master/.releaserc) - [Commits](OpenAPITools/openapi-generator-cli@v2.3.3...v2.3.9) --- updated-dependencies: - dependency-name: "@openapitools/openapi-generator-cli" dependency-type: direct:development update-type: version-update:semver-patch ... Signed-off-by: dependabot[bot] <[email protected]> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * Bump node from 16.2.0-alpine3.12 to 16.6.0-alpine3.12 in /client (#107) Bumps node from 16.2.0-alpine3.12 to 16.6.0-alpine3.12. --- updated-dependencies: - dependency-name: node dependency-type: direct:production update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <[email protected]> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * Bump @testing-library/react from 11.2.7 to 12.0.0 in /client (#105) Bumps [@testing-library/react](https://github.com/testing-library/react-testing-library) from 11.2.7 to 12.0.0. - [Release notes](https://github.com/testing-library/react-testing-library/releases) - [Changelog](https://github.com/testing-library/react-testing-library/blob/main/CHANGELOG.md) - [Commits](testing-library/react-testing-library@v11.2.7...v12.0.0) --- updated-dependencies: - dependency-name: "@testing-library/react" dependency-type: direct:production update-type: version-update:semver-major ... Signed-off-by: dependabot[bot] <[email protected]> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * Bump nginx from 1.21.0-alpine to 1.21.1-alpine in /client (#106) Bumps nginx from 1.21.0-alpine to 1.21.1-alpine. --- updated-dependencies: - dependency-name: nginx dependency-type: direct:production update-type: version-update:semver-patch ... Signed-off-by: dependabot[bot] <[email protected]> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * Bump @typescript-eslint/parser from 4.26.0 to 4.28.5 in /client (#111) Bumps [@typescript-eslint/parser](https://github.com/typescript-eslint/typescript-eslint/tree/HEAD/packages/parser) from 4.26.0 to 4.28.5. - [Release notes](https://github.com/typescript-eslint/typescript-eslint/releases) - [Changelog](https://github.com/typescript-eslint/typescript-eslint/blob/master/packages/parser/CHANGELOG.md) - [Commits](https://github.com/typescript-eslint/typescript-eslint/commits/v4.28.5/packages/parser) --- updated-dependencies: - dependency-name: "@typescript-eslint/parser" dependency-type: direct:development update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <[email protected]> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Connor Boyle <[email protected]> * Bump web-vitals from 1.1.1 to 2.0.1 in /client (#87) Bumps [web-vitals](https://github.com/GoogleChrome/web-vitals) from 1.1.1 to 2.0.1. - [Release notes](https://github.com/GoogleChrome/web-vitals/releases) - [Changelog](https://github.com/GoogleChrome/web-vitals/blob/main/CHANGELOG.md) - [Commits](GoogleChrome/web-vitals@v1.1.1...v2.0.1) --- updated-dependencies: - dependency-name: web-vitals dependency-type: direct:production update-type: version-update:semver-major ... Signed-off-by: dependabot[bot] <[email protected]> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Thomas Schaffter <[email protected]> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Thomas Schaffter <[email protected]>
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# pull official node base image | ||
FROM node:16.2.0-alpine3.12 as build | ||
FROM node:16.6.0-alpine3.12 as build | ||
WORKDIR /app | ||
ENV PATH /app/node_modules/.bin:$PATH | ||
COPY package.json ./ | ||
COPY package-lock.json ./ | ||
RUN npm ci --silent | ||
RUN npm install [email protected] -g --silent | ||
COPY . ./ | ||
COPY src ./src | ||
COPY public ./public | ||
RUN npm run build | ||
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||
# production environment | ||
FROM nginx:1.21.0-alpine | ||
FROM nginx:1.21.1-alpine | ||
COPY --from=build /app/build /usr/share/nginx/html | ||
COPY nginx/nginx.conf /etc/nginx/conf.d/default.conf | ||
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5.1.1 | ||
5.2.0 |
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/* eslint-disable */ | ||
/** | ||
* NLP Sandbox PHI Deidentifier API | ||
* # Introduction This NLP tool takes as input a clinical note and returned a de-identified version of the note. This design of this API is a work in progress. # Examples - [NLP Sandbox PHI Deidentifier](https://github.com/nlpsandbox/phi-deidentifier) | ||
* # Introduction This NLP tool takes as input a clinical note and returned a de-identified version of the note. This design of this API is a work in progress. # Examples - [NLP Sandbox PHI Deidentifier Example](https://github.com/nlpsandbox/phi-deidentifier-example) | ||
* | ||
* The version of the OpenAPI document: 1.1.2 | ||
* The version of the OpenAPI document: 1.2.0 | ||
* Contact: [email protected] | ||
* | ||
* NOTE: This class is auto generated by OpenAPI Generator (https://openapi-generator.tech). | ||
|
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/* eslint-disable */ | ||
/** | ||
* NLP Sandbox PHI Deidentifier API | ||
* # Introduction This NLP tool takes as input a clinical note and returned a de-identified version of the note. This design of this API is a work in progress. # Examples - [NLP Sandbox PHI Deidentifier](https://github.com/nlpsandbox/phi-deidentifier) | ||
* # Introduction This NLP tool takes as input a clinical note and returned a de-identified version of the note. This design of this API is a work in progress. # Examples - [NLP Sandbox PHI Deidentifier Example](https://github.com/nlpsandbox/phi-deidentifier-example) | ||
* | ||
* The version of the OpenAPI document: 1.1.2 | ||
* The version of the OpenAPI document: 1.2.0 | ||
* Contact: [email protected] | ||
* | ||
* NOTE: This class is auto generated by OpenAPI Generator (https://openapi-generator.tech). | ||
|
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/* eslint-disable */ | ||
/** | ||
* NLP Sandbox PHI Deidentifier API | ||
* # Introduction This NLP tool takes as input a clinical note and returned a de-identified version of the note. This design of this API is a work in progress. # Examples - [NLP Sandbox PHI Deidentifier](https://github.com/nlpsandbox/phi-deidentifier) | ||
* # Introduction This NLP tool takes as input a clinical note and returned a de-identified version of the note. This design of this API is a work in progress. # Examples - [NLP Sandbox PHI Deidentifier Example](https://github.com/nlpsandbox/phi-deidentifier-example) | ||
* | ||
* The version of the OpenAPI document: 1.1.2 | ||
* The version of the OpenAPI document: 1.2.0 | ||
* Contact: [email protected] | ||
* | ||
* NOTE: This class is auto generated by OpenAPI Generator (https://openapi-generator.tech). | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
|
@@ -2,9 +2,9 @@ | |
/* eslint-disable */ | ||
/** | ||
* NLP Sandbox PHI Deidentifier API | ||
* # Introduction This NLP tool takes as input a clinical note and returned a de-identified version of the note. This design of this API is a work in progress. # Examples - [NLP Sandbox PHI Deidentifier](https://github.com/nlpsandbox/phi-deidentifier) | ||
* # Introduction This NLP tool takes as input a clinical note and returned a de-identified version of the note. This design of this API is a work in progress. # Examples - [NLP Sandbox PHI Deidentifier Example](https://github.com/nlpsandbox/phi-deidentifier-example) | ||
* | ||
* The version of the OpenAPI document: 1.1.2 | ||
* The version of the OpenAPI document: 1.2.0 | ||
* Contact: [email protected] | ||
* | ||
* NOTE: This class is auto generated by OpenAPI Generator (https://openapi-generator.tech). | ||
|
@@ -26,14 +26,14 @@ import { | |
TextIdAnnotationFromJSON, | ||
TextIdAnnotationFromJSONTyped, | ||
TextIdAnnotationToJSON, | ||
TextLocationAnnotation, | ||
TextLocationAnnotationFromJSON, | ||
TextLocationAnnotationFromJSONTyped, | ||
TextLocationAnnotationToJSON, | ||
TextPersonNameAnnotation, | ||
TextPersonNameAnnotationFromJSON, | ||
TextPersonNameAnnotationFromJSONTyped, | ||
TextPersonNameAnnotationToJSON, | ||
TextPhysicalAddressAnnotation, | ||
TextPhysicalAddressAnnotationFromJSON, | ||
TextPhysicalAddressAnnotationFromJSONTyped, | ||
TextPhysicalAddressAnnotationToJSON, | ||
} from './'; | ||
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||
/** | ||
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@@ -55,11 +55,11 @@ export interface AnnotationSet { | |
*/ | ||
textPersonNameAnnotations: Array<TextPersonNameAnnotation>; | ||
/** | ||
* Physical address annotations in a text | ||
* @type {Array<TextPhysicalAddressAnnotation>} | ||
* Location annotations in a text | ||
* @type {Array<TextLocationAnnotation>} | ||
* @memberof AnnotationSet | ||
*/ | ||
textPhysicalAddressAnnotations: Array<TextPhysicalAddressAnnotation>; | ||
textLocationAnnotations: Array<TextLocationAnnotation>; | ||
/** | ||
* ID annotations in a text | ||
* @type {Array<TextIdAnnotation>} | ||
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@@ -86,7 +86,7 @@ export function AnnotationSetFromJSONTyped(json: any, ignoreDiscriminator: boole | |
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||
'textDateAnnotations': ((json['textDateAnnotations'] as Array<any>).map(TextDateAnnotationFromJSON)), | ||
'textPersonNameAnnotations': ((json['textPersonNameAnnotations'] as Array<any>).map(TextPersonNameAnnotationFromJSON)), | ||
'textPhysicalAddressAnnotations': ((json['textPhysicalAddressAnnotations'] as Array<any>).map(TextPhysicalAddressAnnotationFromJSON)), | ||
'textLocationAnnotations': ((json['textLocationAnnotations'] as Array<any>).map(TextLocationAnnotationFromJSON)), | ||
'textIdAnnotations': ((json['textIdAnnotations'] as Array<any>).map(TextIdAnnotationFromJSON)), | ||
'textContactAnnotations': ((json['textContactAnnotations'] as Array<any>).map(TextContactAnnotationFromJSON)), | ||
}; | ||
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@@ -103,7 +103,7 @@ export function AnnotationSetToJSON(value?: AnnotationSet | null): any { | |
|
||
'textDateAnnotations': ((value.textDateAnnotations as Array<any>).map(TextDateAnnotationToJSON)), | ||
'textPersonNameAnnotations': ((value.textPersonNameAnnotations as Array<any>).map(TextPersonNameAnnotationToJSON)), | ||
'textPhysicalAddressAnnotations': ((value.textPhysicalAddressAnnotations as Array<any>).map(TextPhysicalAddressAnnotationToJSON)), | ||
'textLocationAnnotations': ((value.textLocationAnnotations as Array<any>).map(TextLocationAnnotationToJSON)), | ||
'textIdAnnotations': ((value.textIdAnnotations as Array<any>).map(TextIdAnnotationToJSON)), | ||
'textContactAnnotations': ((value.textContactAnnotations as Array<any>).map(TextContactAnnotationToJSON)), | ||
}; | ||
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|
@@ -2,9 +2,9 @@ | |
/* eslint-disable */ | ||
/** | ||
* NLP Sandbox PHI Deidentifier API | ||
* # Introduction This NLP tool takes as input a clinical note and returned a de-identified version of the note. This design of this API is a work in progress. # Examples - [NLP Sandbox PHI Deidentifier](https://github.com/nlpsandbox/phi-deidentifier) | ||
* # Introduction This NLP tool takes as input a clinical note and returned a de-identified version of the note. This design of this API is a work in progress. # Examples - [NLP Sandbox PHI Deidentifier Example](https://github.com/nlpsandbox/phi-deidentifier-example) | ||
* | ||
* The version of the OpenAPI document: 1.1.2 | ||
* The version of the OpenAPI document: 1.2.0 | ||
* Contact: [email protected] | ||
* | ||
* NOTE: This class is auto generated by OpenAPI Generator (https://openapi-generator.tech). | ||
|
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---|---|---|
|
@@ -2,9 +2,9 @@ | |
/* eslint-disable */ | ||
/** | ||
* NLP Sandbox PHI Deidentifier API | ||
* # Introduction This NLP tool takes as input a clinical note and returned a de-identified version of the note. This design of this API is a work in progress. # Examples - [NLP Sandbox PHI Deidentifier](https://github.com/nlpsandbox/phi-deidentifier) | ||
* # Introduction This NLP tool takes as input a clinical note and returned a de-identified version of the note. This design of this API is a work in progress. # Examples - [NLP Sandbox PHI Deidentifier Example](https://github.com/nlpsandbox/phi-deidentifier-example) | ||
* | ||
* The version of the OpenAPI document: 1.1.2 | ||
* The version of the OpenAPI document: 1.2.0 | ||
* Contact: [email protected] | ||
* | ||
* NOTE: This class is auto generated by OpenAPI Generator (https://openapi-generator.tech). | ||
|
@@ -43,7 +43,7 @@ export interface DeidentificationStep { | |
*/ | ||
maskingCharConfig?: MaskingCharConfig; | ||
/** | ||
* Configuration for the "annotation type" strategy. E.g. "John Smith lives at 123 Main St" -> "[PERSON_NAME] lives at [PHYSICAL_ADDRESS]". | ||
* Configuration for the "annotation type" strategy. E.g. "John Smith lives at 123 Main St" -> "[PERSON_NAME] lives at [LOCATION]". | ||
* @type {object} | ||
* @memberof DeidentificationStep | ||
*/ | ||
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@@ -75,7 +75,7 @@ export interface DeidentificationStep { | |
export enum DeidentificationStepAnnotationTypesEnum { | ||
Date = 'text_date', | ||
PersonName = 'text_person_name', | ||
PhysicalAddress = 'text_physical_address', | ||
Location = 'text_location', | ||
Id = 'text_id', | ||
Contact = 'text_contact' | ||
} | ||
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/* eslint-disable */ | ||
/** | ||
* NLP Sandbox PHI Deidentifier API | ||
* # Introduction This NLP tool takes as input a clinical note and returned a de-identified version of the note. This design of this API is a work in progress. # Examples - [NLP Sandbox PHI Deidentifier](https://github.com/nlpsandbox/phi-deidentifier) | ||
* # Introduction This NLP tool takes as input a clinical note and returned a de-identified version of the note. This design of this API is a work in progress. # Examples - [NLP Sandbox PHI Deidentifier Example](https://github.com/nlpsandbox/phi-deidentifier-example) | ||
* | ||
* The version of the OpenAPI document: 1.1.2 | ||
* The version of the OpenAPI document: 1.2.0 | ||
* Contact: [email protected] | ||
* | ||
* NOTE: This class is auto generated by OpenAPI Generator (https://openapi-generator.tech). | ||
|
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|
@@ -2,9 +2,9 @@ | |
/* eslint-disable */ | ||
/** | ||
* NLP Sandbox PHI Deidentifier API | ||
* # Introduction This NLP tool takes as input a clinical note and returned a de-identified version of the note. This design of this API is a work in progress. # Examples - [NLP Sandbox PHI Deidentifier](https://github.com/nlpsandbox/phi-deidentifier) | ||
* # Introduction This NLP tool takes as input a clinical note and returned a de-identified version of the note. This design of this API is a work in progress. # Examples - [NLP Sandbox PHI Deidentifier Example](https://github.com/nlpsandbox/phi-deidentifier-example) | ||
* | ||
* The version of the OpenAPI document: 1.1.2 | ||
* The version of the OpenAPI document: 1.2.0 | ||
* Contact: [email protected] | ||
* | ||
* NOTE: This class is auto generated by OpenAPI Generator (https://openapi-generator.tech). | ||
|
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|
@@ -2,9 +2,9 @@ | |
/* eslint-disable */ | ||
/** | ||
* NLP Sandbox PHI Deidentifier API | ||
* # Introduction This NLP tool takes as input a clinical note and returned a de-identified version of the note. This design of this API is a work in progress. # Examples - [NLP Sandbox PHI Deidentifier](https://github.com/nlpsandbox/phi-deidentifier) | ||
* # Introduction This NLP tool takes as input a clinical note and returned a de-identified version of the note. This design of this API is a work in progress. # Examples - [NLP Sandbox PHI Deidentifier Example](https://github.com/nlpsandbox/phi-deidentifier-example) | ||
* | ||
* The version of the OpenAPI document: 1.1.2 | ||
* The version of the OpenAPI document: 1.2.0 | ||
* Contact: [email protected] | ||
* | ||
* NOTE: This class is auto generated by OpenAPI Generator (https://openapi-generator.tech). | ||
|
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|
@@ -2,9 +2,9 @@ | |
/* eslint-disable */ | ||
/** | ||
* NLP Sandbox PHI Deidentifier API | ||
* # Introduction This NLP tool takes as input a clinical note and returned a de-identified version of the note. This design of this API is a work in progress. # Examples - [NLP Sandbox PHI Deidentifier](https://github.com/nlpsandbox/phi-deidentifier) | ||
* # Introduction This NLP tool takes as input a clinical note and returned a de-identified version of the note. This design of this API is a work in progress. # Examples - [NLP Sandbox PHI Deidentifier Example](https://github.com/nlpsandbox/phi-deidentifier-example) | ||
* | ||
* The version of the OpenAPI document: 1.1.2 | ||
* The version of the OpenAPI document: 1.2.0 | ||
* Contact: [email protected] | ||
* | ||
* NOTE: This class is auto generated by OpenAPI Generator (https://openapi-generator.tech). | ||
|
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|
@@ -2,9 +2,9 @@ | |
/* eslint-disable */ | ||
/** | ||
* NLP Sandbox PHI Deidentifier API | ||
* # Introduction This NLP tool takes as input a clinical note and returned a de-identified version of the note. This design of this API is a work in progress. # Examples - [NLP Sandbox PHI Deidentifier](https://github.com/nlpsandbox/phi-deidentifier) | ||
* # Introduction This NLP tool takes as input a clinical note and returned a de-identified version of the note. This design of this API is a work in progress. # Examples - [NLP Sandbox PHI Deidentifier Example](https://github.com/nlpsandbox/phi-deidentifier-example) | ||
* | ||
* The version of the OpenAPI document: 1.1.2 | ||
* The version of the OpenAPI document: 1.2.0 | ||
* Contact: [email protected] | ||
* | ||
* NOTE: This class is auto generated by OpenAPI Generator (https://openapi-generator.tech). | ||
|
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|
@@ -2,9 +2,9 @@ | |
/* eslint-disable */ | ||
/** | ||
* NLP Sandbox PHI Deidentifier API | ||
* # Introduction This NLP tool takes as input a clinical note and returned a de-identified version of the note. This design of this API is a work in progress. # Examples - [NLP Sandbox PHI Deidentifier](https://github.com/nlpsandbox/phi-deidentifier) | ||
* # Introduction This NLP tool takes as input a clinical note and returned a de-identified version of the note. This design of this API is a work in progress. # Examples - [NLP Sandbox PHI Deidentifier Example](https://github.com/nlpsandbox/phi-deidentifier-example) | ||
* | ||
* The version of the OpenAPI document: 1.1.2 | ||
* The version of the OpenAPI document: 1.2.0 | ||
* Contact: [email protected] | ||
* | ||
* NOTE: This class is auto generated by OpenAPI Generator (https://openapi-generator.tech). | ||
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/** | ||
* NLP Sandbox PHI Deidentifier API | ||
* # Introduction This NLP tool takes as input a clinical note and returned a de-identified version of the note. This design of this API is a work in progress. # Examples - [NLP Sandbox PHI Deidentifier](https://github.com/nlpsandbox/phi-deidentifier) | ||
* # Introduction This NLP tool takes as input a clinical note and returned a de-identified version of the note. This design of this API is a work in progress. # Examples - [NLP Sandbox PHI Deidentifier Example](https://github.com/nlpsandbox/phi-deidentifier-example) | ||
* | ||
* The version of the OpenAPI document: 1.1.2 | ||
* The version of the OpenAPI document: 1.2.0 | ||
* Contact: [email protected] | ||
* | ||
* NOTE: This class is auto generated by OpenAPI Generator (https://openapi-generator.tech). | ||
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This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
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Original file line number | Diff line number | Diff line change |
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|
@@ -2,9 +2,9 @@ | |
/* eslint-disable */ | ||
/** | ||
* NLP Sandbox PHI Deidentifier API | ||
* # Introduction This NLP tool takes as input a clinical note and returned a de-identified version of the note. This design of this API is a work in progress. # Examples - [NLP Sandbox PHI Deidentifier](https://github.com/nlpsandbox/phi-deidentifier) | ||
* # Introduction This NLP tool takes as input a clinical note and returned a de-identified version of the note. This design of this API is a work in progress. # Examples - [NLP Sandbox PHI Deidentifier Example](https://github.com/nlpsandbox/phi-deidentifier-example) | ||
* | ||
* The version of the OpenAPI document: 1.1.2 | ||
* The version of the OpenAPI document: 1.2.0 | ||
* Contact: [email protected] | ||
* | ||
* NOTE: This class is auto generated by OpenAPI Generator (https://openapi-generator.tech). | ||
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