validation for sample

api/sample.yaml

@@ -142,6 +142,31 @@
       500:
         $ref: 'api.yaml#/components/responses/500'
 
+/sample/validate/{id}:
+  parameters:
+    - $ref: 'api.yaml#/components/parameters/Id'
+  put:
+    summary: set sample status to validated
+    description: 'Auth: basic, levels: maintain, admin'
+    x-doc: status is set to 10
+    tags:
+      - /sample
+    security:
+      - BasicAuth: []
+    responses:
+      200:
+        $ref: 'api.yaml#/components/responses/Ok'
+      400:
+        $ref: 'api.yaml#/components/responses/400'
+      401:
+        $ref: 'api.yaml#/components/responses/401'
+      403:
+        $ref: 'api.yaml#/components/responses/403'
+      404:
+        $ref: 'api.yaml#/components/responses/404'
+      500:
+        $ref: 'api.yaml#/components/responses/500'
+
 /sample/new:
   post:
     summary: add sample

src/routes/sample.spec.ts

@@ -12,7 +12,6 @@ import mongoose from 'mongoose';
 // TODO: filter by not completely filled/no measurements
 // TODO: write script for data import
 // TODO: allow adding sample numbers for existing samples
-// TODO: Do not allow validation or measurement entry without condition
 
 
 describe('/sample', () => {
@@ -875,6 +874,81 @@ describe('/sample', () => {
     });
   });
 
+  describe('PUT /sample/validate/{id}', () => {
+    it('sets the status', done => {
+      TestHelper.request(server, done, {
+        method: 'put',
+        url: '/sample/validate/400000000000000000000003',
+        auth: {basic: 'admin'},
+        httpStatus: 200,
+        req: {}
+      }).end((err, res) => {
+        if (err) return done (err);
+        should(res.body).be.eql({status: 'OK'});
+        SampleModel.findById('400000000000000000000003').lean().exec((err, data: any) => {
+          if (err) return done(err);
+          should(data).have.property('status',globals.status.validated);
+          done();
+        });
+      });
+    });
+    it('rejects validating a sample without condition', done => {
+      TestHelper.request(server, done, {
+        method: 'put',
+        url: '/sample/validate/400000000000000000000006',
+        auth: {basic: 'admin'},
+        httpStatus: 400,
+        req: {},
+        res: {status: 'Sample without condition cannot be valid'}
+      });
+    });
+    it('rejects validating a sample without measurements', done => {
+      TestHelper.request(server, done, {
+        method: 'put',
+        url: '/sample/validate/400000000000000000000004',
+        auth: {basic: 'admin'},
+        httpStatus: 400,
+        req: {},
+        res: {status: 'Sample without measurements cannot be valid'}
+      });
+    });
+    it('rejects an API key', done => {
+      TestHelper.request(server, done, {
+        method: 'put',
+        url: '/sample/validate/400000000000000000000003',
+        auth: {key: 'admin'},
+        httpStatus: 401,
+        req: {}
+      });
+    });
+    it('rejects a write user', done => {
+      TestHelper.request(server, done, {
+        method: 'put',
+        url: '/sample/validate/400000000000000000000003',
+        auth: {basic: 'janedoe'},
+        httpStatus: 403,
+        req: {}
+      });
+    });
+    it('returns 404 for an unknown sample', done => {
+      TestHelper.request(server, done, {
+        method: 'put',
+        url: '/sample/validate/000000000000000000000003',
+        auth: {basic: 'admin'},
+        httpStatus: 404,
+        req: {}
+      });
+    });
+    it('rejects unauthorized requests', done => {
+      TestHelper.request(server, done, {
+        method: 'put',
+        url: '/sample/validate/400000000000000000000003',
+        httpStatus: 401,
+        req: {}
+      });
+    });
+  });
+
   describe('POST /sample/new', () => {
     it('returns the right sample', done => {
       TestHelper.request(server, done, {

src/routes/sample.ts

@@ -182,6 +182,34 @@ router.put('/sample/restore/' + IdValidate.parameter(), (req, res, next) => {
   });
 });
 
+router.put('/sample/validate/' + IdValidate.parameter(), (req, res, next) => {
+  if (!req.auth(res, ['maintain', 'admin'], 'basic')) return;
+
+  SampleModel.findById(req.params.id).lean().exec((err, data: any) => {
+    if (err) return next(err);
+
+    if (!data) {
+      return res.status(404).json({status: 'Not found'});
+    }
+    if (Object.keys(data.condition).length === 0) {
+      return res.status(400).json({status: 'Sample without condition cannot be valid'});
+    }
+
+    MeasurementModel.find({sample_id: mongoose.Types.ObjectId(req.params.id)}).lean().exec((err, data) => {
+      if (err) return next(err);
+
+      if (data.length === 0) {
+        return res.status(400).json({status: 'Sample without measurements cannot be valid'});
+      }
+
+      SampleModel.findByIdAndUpdate(req.params.id, {status: globals.status.validated}).lean().exec(err => {
+        if (err) return next(err);
+        res.json({status: 'OK'});
+      });
+    });
+  });
+});
+
 router.post('/sample/new', async (req, res, next) => {
   if (!req.auth(res, ['write', 'maintain', 'dev', 'admin'], 'basic')) return;
 

src/test/db.json

@@ -407,6 +407,17 @@
         "status": 10,
         "measurement_template": {"$oid":"300000000000000000000002"},
         "__v": 0
+      },
+      {
+        "_id": {"$oid":"800000000000000000000006"},
+        "sample_id": {"$oid":"400000000000000000000006"},
+        "values": {
+          "weight %": 0.5,
+          "standard deviation":null
+        },
+        "status": 0,
+        "measurement_template": {"$oid":"300000000000000000000002"},
+        "__v": 0
       }
     ],
     "condition_templates": [