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Commit b7ce0ddf authored by Christoffer Stoll's avatar Christoffer Stoll
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Merge branch 'development' into 'master' 

new version - various bug fixes

See merge request !14
parents 42a5a4f1 e54cc051
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Tags v.3.0.18
2 merge requests!18Master,!14new version - various bug fixes
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.vscode/settings.json
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− 1
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{
"html.format.wrapLineLength": 0,
"python.formatting.autopep8Args": ["--max-line-length=20000"],
"autopep8.args": ["--max-line-length=20000"],
"editor.defaultFormatter": "esbenp.prettier-vscode",
"editor.tabSize": 2,
"editor.insertSpaces": true,
......
Dockerfile.api
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......@@ -4,6 +4,7 @@ RUN apt -y install
WORKDIR /app
COPY api/requirements.txt .
RUN pip install -r requirements.txt
COPY .env ../
COPY api/ ./
ENV PYTHONUNBUFFERED=1
EXPOSE 5000
......
README.md
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......@@ -28,9 +28,11 @@ git clone https://git.nilu.no/raven/raven-administration
## Set environment varables
**Create a file called `.env` in the `api` folder and set the variables**
**Create a file called `.env` in the `root` folder and set the variables**
```
API_PORT=5000
CLIENT_PORT=80
DB_URI = postgresql://postgres:password@host:5432/database
JWT_ACCESS_TOKEN_EXPIRES_SECONDS = 3600
JWT_SECRET_KEY = make-up-a-secure-key
......@@ -90,3 +92,19 @@ flask run
# from inside the client folder start the frontend
npm run dev
```
## Pre aggregations
Aggregating data can be triggered manually in the raven app.
However, it is recommended to set up a schedule to trigger the aggregation on a daily basis.
The sql command that needs to run is `select raven_refresh_aggregates()`
One ways is to use the postgres extension `pgagent`. This will enable a schedular within postgres.
Another way is to set up a `cron` job in linux or a `schtasks` in windows
The `cron` folder has a python script that can be used together with a schedular.
It does require `psycopg2-binary==2.9.5`, so make sure this is available for the scheduled task.
```powershell
# Example of how to set up a scheduled task in Windows
schtasks /create /SC DAILY /TN raven-refresh-views /TR "<path_to_python> <path_to_raven>\cron\refresh_views.py" /ST 00:10
```
api/config.py
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......@@ -4,7 +4,13 @@ from datetime import datetime
from datetime import timedelta
basedir = os.path.abspath(os.path.dirname(__file__))
load_dotenv(os.path.join(basedir, '.env'))
env_in_api = os.path.isfile(os.path.join(basedir, '.env'))
env_in_root = os.path.isfile(os.path.join(basedir, '../.env'))
path = os.path.join(basedir, '.env') if env_in_api else os.path.join(basedir, '../.env')
load_dotenv(path)
class Config(object):
......
api/core/data/processing/scaling.py
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......@@ -98,6 +98,7 @@ class Scaling:
o.validation_flag,
o.import_value::DOUBLE PRECISION,
o.import_value::DOUBLE PRECISION as value,
null as scaled_value,
o.from_time, o.to_time,
extract(epoch from o.to_time)*1000 as to_epoch,
extract(epoch from o.from_time)*1000 as from_epoch
......@@ -187,4 +188,6 @@ class Scaling:
@staticmethod
def __scalevalue__(zero, span, gas, value):
if value == -9900:
return value
return (float(gas) / (float(span) - float(zero))) * (float(value) - float(zero))
api/core/eea/dataflows.py
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− 3
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......@@ -253,9 +253,6 @@ class Dataflows:
ST_Z(st.geom) altitude,
ST_SRID(st.geom) epsg
FROM stations st
LEFT OUTER JOIN sampling_points sp ON st.id = sp.station_id
WHERE
sp.private = false
GROUP BY
st.id,
st.name,
......
api/core/endpoints.py
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......@@ -66,6 +66,9 @@ class Endpoints:
from endpoints.data.dataflow.routes import dataflow_endpoint
app.register_blueprint(dataflow_endpoint)
from endpoints.management.preaggregation.routes import preagg_endpoint
app.register_blueprint(preagg_endpoint)
from endpoints.data.map.routes import map_endpoint
app.register_blueprint(map_endpoint)
......
api/endpoints/management/preaggregation/models.py 0 → 100644
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from pydantic import BaseModel
class AggModel(BaseModel):
type: str
api/endpoints/management/preaggregation/routes.py 0 → 100644
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− 0
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from flask import jsonify, Blueprint, request
from endpoints.management.preaggregation.models import AggModel
from core.database import CursorFromPool
from core.jwt_ext_custom import jwt_required_with_management_claim
from core.query import Q
preagg_endpoint = Blueprint('preagg', __name__)
@preagg_endpoint.route('/api/management/preaggregation', methods=['GET'])
@jwt_required_with_management_claim()
def preagg():
with CursorFromPool() as cursor:
sql = f"""
select 'year' as type, round(avg(cov)) as avg_cov, count(*) as count_val, count(distinct sampling_point_id) count_sp, to_char(min(time),'yyyy-mm-dd HH24:mi') as first_time, to_char(max(time),'yyyy-mm-dd HH24:mi') as last_time, to_char(max(created),'yyyy-mm-dd HH24:mi') as created from observations_year
union
select 'day' as type, round(avg(cov)) as avg_cov, count(*) as count_val, count(distinct sampling_point_id) count_sp, to_char(min(time),'yyyy-mm-dd HH24:mi') as first_time, to_char(max(time),'yyyy-mm-dd HH24:mi') as last_time, to_char(max(created),'yyyy-mm-dd HH24:mi') as created from observations_day
union
select 'winter season' as type, round(avg(cov)) as avg_cov, count(*) as count_val, count(distinct sampling_point_id) count_sp, to_char(min(time),'yyyy-mm-dd HH24:mi') as first_time, to_char(max(time),'yyyy-mm-dd HH24:mi') as last_time,to_char(max(created),'yyyy-mm-dd HH24:mi') as created from observations_winter_season
union
select 'winter year' as type, round(avg(cov)) as avg_cov, count(*) as count_val, count(distinct sampling_point_id) count_sp, to_char(min(time),'yyyy-mm-dd HH24:mi') as first_time, to_char(max(time),'yyyy-mm-dd HH24:mi') as last_time, to_char(max(created),'yyyy-mm-dd HH24:mi') as created from observations_winter_year
union
select 'summer year' as type, round(avg(cov)) as avg_cov, count(*) as count_val, count(distinct sampling_point_id) count_sp, to_char(min(time),'yyyy-mm-dd HH24:mi') as first_time, to_char(max(time),'yyyy-mm-dd HH24:mi') as last_time, to_char(max(created),'yyyy-mm-dd HH24:mi') as created from observations_summer_year
union
select 'aot40 vegetation' as type, round(avg(cov)) as avg_cov, count(*) as count_val, count(distinct sampling_point_id) count_sp, to_char(min(time),'yyyy-mm-dd HH24:mi') as first_time, to_char(max(time),'yyyy-mm-dd HH24:mi') as last_time, to_char(max(created),'yyyy-mm-dd HH24:mi') as created from observations_aot40v
union
select 'aot40 forrest' as type, round(avg(cov)) as avg_cov, count(*) as count_val, count(distinct sampling_point_id) count_sp, to_char(min(time),'yyyy-mm-dd HH24:mi') as first_time, to_char(max(time),'yyyy-mm-dd HH24:mi') as last_time, to_char(max(created),'yyyy-mm-dd HH24:mi') as created from observations_aot40f
order by type
"""
cursor.execute(sql)
values = cursor.fetchall()
return jsonify(values)
@preagg_endpoint.route('/api/management/preaggregation/update', methods=['GET'])
@jwt_required_with_management_claim()
def preagg_update():
with CursorFromPool() as cursor:
cursor.execute("select raven_refresh_aggregates();")
return jsonify({'message': 'success'})
api/endpoints/qualitycontrol/validate/routes.py
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......@@ -26,7 +26,9 @@ def timevalues():
o.sampling_point_id as "sampling_point_id",
o.validation_flag,
o.verification_flag,
o.value::double PRECISION
o.value::double PRECISION ,
case when o.validation_flag not in (1,2,3) then null else o.value::double PRECISION end as "valid_value_only",
o.import_value::double PRECISION
FROM observations o
WHERE 1=1
AND o.from_time >= %(from_dt)s
......
api/endpoints/version/routes.py
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......@@ -3,7 +3,7 @@ from flask_jwt_extended import create_access_token
import requests
version_endpoint = Blueprint('version', __name__)
current_version = "3.0.16"
current_version = "3.0.18"
@version_endpoint.route('/api/version', methods=['GET'])
......
client/src/components/MenuBar.vue
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......@@ -44,7 +44,8 @@ const getmodules = () => {
{ name: "Assessment Regimes", comp: "AssessmentRegimes", show: jwt.management && jwt.allnetworks },
{ name: "Attainments", comp: "Attainments", show: jwt.management && jwt.allnetworks },
{ name: "Exceedances", comp: "Exceedances", show: jwt.management && jwt.allnetworks },
{ name: "Settings", comp: "Settings", show: jwt.management && jwt.allnetworks }
{ name: "Settings", comp: "Settings", show: jwt.management && jwt.allnetworks },
{ name: "Pre aggregation", comp: "PreAggregation", show: jwt.data }
]
},
{
......
client/src/components/ProgressBar.vue
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<template>
<div class="transition-position duration-500 ease-in-out absolute top-0 left-0 right-0 h-1 z-[999]" :class="cls"></div>
<div class="transition-position duration-500 ease-in-out absolute left-0 right-0 h-1 z-[999]" :class="cls"></div>
</template>
<script setup>
......@@ -24,7 +24,7 @@ onMounted(async () => {
});
const cls = computed(() => {
var s = show.value ? "top-0" : "-top-10";
var s = show.value ? "!top-0" : "!-top-10";
s = s + (fail.value ? " bg-nord11" : " bg-nord7 animate-pulse");
return s;
});
......
client/src/router.js
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− 0
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......@@ -16,6 +16,7 @@ const AssessmentRegimes = () => import("./views/management/assessmentregimes/Ass
const Attainments = () => import("./views/management/attainments/Attainments.vue");
const Exceedances = () => import("./views/management/exceedances/Exceedances.vue");
const Settings = () => import("./views/management/settings/Settings.vue");
const PreAggregation = () => import("./views/management/preaggregation/PreAggregation.vue");
const Latest = () => import("./views/data/latest/Latest.vue");
const Historical = () => import("./views/data/historical/Historical.vue");
......@@ -53,6 +54,7 @@ const routes = [
{ path: "/management/attainments", component: Attainments, name: "Attainments" },
{ path: "/management/exceedances", component: Exceedances, name: "Exceedances" },
{ path: "/management/settings", component: Settings, name: "Settings" },
{ path: "/management/preaggregation", component: PreAggregation, name: "PreAggregation" },
{ path: "/data/latest", component: Latest, name: "Latest" },
{ path: "/data/historical", component: Historical, name: "Historical" },
......
client/src/views/login/Login.vue
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......@@ -53,7 +53,7 @@ const reset = () => {
<template>
<div class="flex justify-center mt-10 w-full">
<container class="m-auto w-80 !gap-0" v-if="!canCreateAdmin">
<container class="m-auto !w-80 !gap-0" v-if="!canCreateAdmin">
<div class="p-2 flex flex-col">
<div class="mb-1">Username:</div>
<input type="text" placeholder="Username" class="n-input w-full" v-model="username" @keyup.enter="login" />
......
client/src/views/management/preaggregation/PreAggregation.vue 0 → 100644
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− 0
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<script setup>
import Service from "./service";
import Eventy from "../../../helpers/eventy";
const data = ref([]);
onMounted(async () => {
await loadData();
});
const loadData = async () => {
data.value = await Service.get();
};
const update = async () => {
Eventy.showMessage("Aggregating data. Please wait", "loading");
await Service.update();
await loadData();
Eventy.hideMessage();
};
</script>
<template>
<common-layout>
<tool-bar title="Pre aggregation" :show-column-picker="false" :show-add="false" :show-download="false" :show-filter="false" />
<container>
<div class="font-bold">Pre aggregating the data may take a while, depending on the amount of data stored in the database</div>
<div><button class="n-button" @click="update">Manually aggregate data</button></div>
</container>
<div class="mt-4">
<table id="preaggId" class="n-table">
<tr>
<th>Aggregation type</th>
<th>Values count</th>
<th>Samplingpoints count</th>
<th>Average coverage</th>
<!-- <th>First date</th> -->
<th>Last date</th>
<th>Last updated</th>
</tr>
<tr v-for="row in data">
<td>{{ row.type }}</td>
<td>{{ row.count_val }}</td>
<td>{{ row.count_sp }}</td>
<td>{{ row.avg_cov ? row.avg_cov + "%" : "-" }}</td>
<!-- <td>{{ row.first_time }}</td> -->
<td>{{ row.last_time ? row.last_time : "-" }}</td>
<td class="font-bold">{{ row.created ? row.created : "-" }}</td>
</tr>
</table>
</div>
</common-layout>
</template>
client/src/views/management/preaggregation/service.js 0 → 100644
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− 0
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import { Get, Post } from "../../../helpers/request";
const Service = {
get: async () => Get("/api/management/preaggregation"),
update: async () => Get("/api/management/preaggregation/update")
};
export default Service;
client/src/views/processing/scale/LAdd.vue
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− 7
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......@@ -4,32 +4,34 @@ const props = defineProps({
obj: Object
});
// const obj = ref({});
const _obj = ref({});
watch(
() => props.show,
() => (props.obj = {})
() => {
_obj.value = Object.assign({}, props.obj);
}
);
</script>
<template>
<side-bar-crud :show="show" @cancel="$emit('close')" @commit="$emit('save', Object.assign({}, obj))">
<side-bar-crud :show="show" @cancel="$emit('close')" @commit="$emit('save', Object.assign({}, _obj))">
<div class="mb-4 font-bold text-base border-b">Required</div>
<div class="mb-2">
<div class="font-bold">Zero point:</div>
<input type="number" class="n-input w-72" v-model="obj.zero_point" placeholder="float: Zero point value" />
<input type="number" class="n-input w-72" v-model="_obj.zero_point" placeholder="float: Zero point value" />
</div>
<div class="mb-2">
<div class="font-bold">Span value:</div>
<input type="number" class="n-input w-72" v-model="obj.span_value" placeholder="float: Span value" />
<input type="number" class="n-input w-72" v-model="_obj.span_value" placeholder="float: Span value" />
</div>
<div class="mb-2">
<div class="font-bold">Gas concentration:</div>
<input type="number" class="n-input w-72" v-model="obj.gas_concentration" placeholder="float: Gas concentration" />
<input type="number" class="n-input w-72" v-model="_obj.gas_concentration" placeholder="float: Gas concentration" />
</div>
<div class="mb-2">
<div class="font-bold">Timestamp:</div>
<n-datetime v-model="obj.timestamp" class="!w-72" />
<n-datetime v-model="_obj.timestamp" class="!w-72" />
</div>
</side-bar-crud>
</template>
......
client/src/views/qualitycontrol/validate/Validate.vue
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− 3
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......@@ -16,6 +16,7 @@ import Plot from "./plot";
import IconLink from "~icons/ph/link-simple-duotone";
import Container from "../../../components/Container.vue";
import { watch } from "vue";
const timeseries = ref([]);
......@@ -27,6 +28,7 @@ const timevalues = ref([]);
const ev = ref({});
const showContextmenu = ref(false);
const selectedRows = ref([]);
const showValidOnly = ref(false);
const showPlotAndTable = ref(false);
......@@ -44,6 +46,13 @@ onMounted(async () => {
if (route.query.ids || route.query.from || route.query.to) showData();
});
watch(
() => showValidOnly.value,
() => {
formatAndLoad();
}
);
const cmp_timeseries = computed(() => {
return timeseries.value.filter((t) => {
if (!t.fromtime && !t.totime) return true;
......@@ -72,6 +81,9 @@ const load = async () => {
if (!chart) {
chart = new Chart("chart", Plot.config(onDatapointSelection));
}
formatAndLoad();
};
const formatAndLoad = () => {
chart.data = formatValues();
chart.update();
};
......@@ -127,11 +139,12 @@ const formatValues = () => {
let colors = [];
let data = [];
timevalues.value.forEach((o) => {
var v = o.value == -9900 ? null : o.value;
var value_to_use = showValidOnly.value ? o.valid_value_only : o.value;
var v = value_to_use == -9900 ? null : value_to_use;
var c = o.validation_flag < 1 ? "#BF616A" : "#A3BE8C";
const n = Object.assign({}, o);
colors.push(c);
data.push({ x: o.totime.replace(" ", "T"), y: o.value, obj: n });
data.push({ x: o.totime.replace(" ", "T"), y: v, obj: n });
});
return { datasets: [Plot.dataset("Value", data, colors)] };
};
......@@ -201,7 +214,13 @@ const onDatapointSelection = (event, sel, chart) => {
</container>
<div v-show="showPlotAndTable">
<container class="mt-4 !p-4 h-72"><canvas id="chart"></canvas></container>
<container class="mt-4 !p-4 h-80">
<div class="px-2 flex w-fit gap-2">
<div class="font-bold self-center flex-1 cursor-pointer" @click="showValidOnly = !showValidOnly">Show only valid values</div>
<n-checkbox v-model="showValidOnly" class="self-center" />
</div>
<canvas id="chart" class="!h-64"></canvas>
</container>
<div class="mt-4">
<table id="validationId" class="n-table">
......@@ -209,6 +228,7 @@ const onDatapointSelection = (event, sel, chart) => {
<th>From</th>
<th>To</th>
<th>Value</th>
<th>Import value</th>
<th>Validation</th>
<th>Verification</th>
</tr>
......@@ -216,6 +236,7 @@ const onDatapointSelection = (event, sel, chart) => {
<td>{{ row.fromtime }}</td>
<td>{{ row.totime }}</td>
<td>{{ row.value }}</td>
<td>{{ row.import_value }}</td>
<td>{{ row.validation_flag }}</td>
<td class="flex gap-1">
<div class="self-center">{{ row.verification_flag }}</div>
......
client/yarn.lock deleted 100644 → 0
+ 0
− 1250
View file @ 42a5a4f1
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