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kind: pipeline
type: exec
name: default
platform:
os: linux
arch: amd64
steps:
- name: run
commands:
- docker-compose up -d --remove-orphans --build

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__pycache__/
.vscode/
TODO.md

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FROM tiangolo/meinheld-gunicorn-flask:python3.7
RUN pip install flask
COPY ./requirements.txt /app/requirements.txt
WORKDIR /app
RUN pip install -r requirements.txt
COPY . /app

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consider it more useful to permit linking proprietary applications with the
library. If this is what you want to do, use the GNU Lesser General Public
License instead of this License. But first, please read <https://www.gnu.org/
licenses /why-not-lgpl.html>.

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# sdc-lifecycle
[![Build Status](https://drone.med.upct.es/api/badges/ocean/sdc-lifecycle/status.svg)](https://drone.med.upct.es/ocean/sdc-lifecycle)
Web tool to upload, process and store data collected during the campaigns

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*
# Except this files
!.gitignore
!README.md

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This folder contains all the sensor data uploaded to the server

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version: '3.7'
services:
## TODO: Add true proxy WSGI Server instead of running the builtin
uploadtool:
build: .
restart: unless-stopped
volumes:
- /mnt/storage/dataset-neo:/app/dataset
labels:
- traefik.enable=true
- traefik.http.routers.sdc-uploader.entryPoints=web-secure
- traefik.http.routers.sdc-uploader.rule=Host(`upload.med.upct.es`)
- traefik.http.routers.sdc-uploader.tls.certresolver=default
download:
image: abiosoft/caddy
restart: unless-stopped
volumes:
- /mnt/storage/dataset-neo:/srv
labels:
- traefik.enable=true
- traefik.http.routers.sdc-download.entryPoints=web-secure
- traefik.http.routers.sdc-download.rule=Host(`download.med.upct.es`)
- traefik.http.routers.sdc-download.tls.certresolver=default
- traefik.http.services.sdc-download.loadbalancer.server.port=2015

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# cat /gunicorn_conf.py inside container
# Copied to project so we can tune max_content_length
from __future__ import print_function
import json
import multiprocessing
import os
workers_per_core_str = os.getenv("WORKERS_PER_CORE", "2")
web_concurrency_str = os.getenv("WEB_CONCURRENCY", None)
host = os.getenv("HOST", "0.0.0.0")
port = os.getenv("PORT", "80")
bind_env = os.getenv("BIND", None)
use_loglevel = os.getenv("LOG_LEVEL", "info")
if bind_env:
use_bind = bind_env
else:
use_bind = "{host}:{port}".format(host=host, port=port)
cores = multiprocessing.cpu_count()
workers_per_core = float(workers_per_core_str)
default_web_concurrency = workers_per_core * cores
if web_concurrency_str:
web_concurrency = int(web_concurrency_str)
assert web_concurrency > 0
else:
web_concurrency = int(default_web_concurrency)
# Gunicorn config variables
loglevel = use_loglevel
workers = web_concurrency
bind = use_bind
keepalive = 120
errorlog = "-"
# For debugging and testing
log_data = {
"loglevel": loglevel,
"workers": workers,
"bind": bind,
# Additional, non-gunicorn variables
"workers_per_core": workers_per_core,
"host": host,
"port": port,
}
print(json.dumps(log_data))

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from flask import Flask, render_template, request
from datetime import datetime
from probeutils import utils as probeutils
import re
import fnmatch
import os
import meinheld
app = Flask(__name__)
app.config['UPLOAD_FOLDER'] = "./dataset/"
app.config['MAX_CONTENT_LENGTH'] = 10000000000 # 10GB
meinheld.set_max_content_length(100*1024*1024)
app.config['DOWNLOADS_URL'] = "https://download.med.upct.es/"
probes = [{
'sensor': 'SUNA',
'img': 'suna.jpg',
'active': ['SATSLF0037'],
'stations': ['M1', 'M2', 'M3']
}, {
'sensor': 'FIRe',
'img': 'fire.jpg',
'active': ['SATFIS0006'],
'stations': ['M1', 'M2', 'M3']
}, {
'sensor': 'PhycoCTD',
'img': 'phycoctd.jpg',
'active': ['phyco_v1', 'phyco_v2'],
'stations': ['M1', 'M2', 'M3']
}, {
'sensor': 'CastAway',
'img': 'castaway.jpg',
'active': ['CC1326008'],
'stations': ['M1', 'M2', 'M3']
}
#,{
# 'sensor': 'GoPro',
# 'img': 'gopro.png',
# 'active': ['gopro1'],
# 'stations': ['M1', 'M2', 'M3']
#}
]
# Return our beautiful Bootstrap webpage. That we totally have.
@app.route('/')
def upload():
return render_template('upload.html', probes=probes)
# What happens when the files just don't fit
@app.errorhandler(413)
def request_entity_too_large(error):
return 'File Too Thicc', 413
# What happens when we did an oopsie
@app.errorhandler(500)
def internal_server_error(error):
return render_template('error.html')
# What happens when someone uploads a thingy
@app.route('/uploader', methods=['POST'])
def upload_file():
if request.method == 'POST':
f = request.files['file']
# Get which probe the user uploaded
probe = request.form.get('probe')
# Get selected probe
activeProbe = request.form.get('activeProbe')
# Check if its a valid file to upload
# TODO: Implement this method
# probeutils.check(probe, f)
# Check if folder exists
try:
if not os.path.exists(
os.path.join(app.config['UPLOAD_FOLDER'], probe)):
os.makedirs(os.path.join(app.config['UPLOAD_FOLDER'], probe))
if not os.path.exists(
os.path.join(app.config['UPLOAD_FOLDER'], probe, 'raw')):
os.makedirs(os.path.join(
app.config['UPLOAD_FOLDER'], probe, 'raw'))
except Exception:
return render_template('error.html')
# Strip station
# if forceStation is checked, override all station parsing
if (request.form.get("forceStation" + probe) != None):
station = request.form.get("stations" + probe)
else:
if (fnmatch.fnmatch((f.filename).upper(), '*M1*') or fnmatch.fnmatch((f.filename).upper(), 'M1*')):
station = 'M1'
elif (fnmatch.fnmatch((f.filename).upper(), "*M2*") or fnmatch.fnmatch((f.filename).upper(), "M2*")):
station = 'M2'
elif (fnmatch.fnmatch((f.filename).upper(), "*M3*") or fnmatch.fnmatch((f.filename).upper(), "M3*")):
station = 'M3'
# Date Parser of filename
match1 = re.search('\d{4}-\d{2}-\d{2}', f.filename)
if (match1 == None):
match1 = re.search('\d{2}-\d{2}-\d{4}', f.filename)
try:
date = datetime.strptime(match1.group(), '%d-%m-%Y').date()
except Exception:
# Error! More strange data format XD
match1 = re.search('\d{4}\d{2}\d{2}', f.filename)
if (match1 == None):
match1 = re.search('\d{2}\d{2}\d{4}', f.filename)
date = datetime.strptime(match1.group(), '%d%m%Y').date()
else:
date = datetime.strptime(match1.group(), '%Y%m%d').date()
else:
date = datetime.strptime(match1.group(), '%Y-%m-%d').date()
# Crafting the real overpowered name!!!!
filename = probe + '-' + station + '-'+ activeProbe + '-'+ date.strftime("%Y-%m-%d") + '.csv'
#print(filename)
# Setting the filePath and saving it
finalFilename = 'raw-'+filename
rawFilePath = os.path.join(app.config['UPLOAD_FOLDER'], probe, 'raw', finalFilename)
f.save(rawFilePath)
# Start with probe definition
if (probe == 'CastAway'):
''' CastAway Files '''
df_table = probeutils.process_castaway(rawFilePath)
elif (probe == 'SUNA'):
''' SUNA Files '''
df_table = probeutils.process_suna(rawFilePath)
elif (probe == 'FIRe'):
''' FIRe Files '''
df_table = probeutils.process_fire(rawFilePath)
elif (probe == 'PhycoCTD'):
''' PhycoCTD Files '''
df_table = probeutils.process_phyco(rawFilePath)
else:
''' Empty probe '''
df_table = "<div></div>"
# Save file on raw folder and create URL download
url_download = app.config['DOWNLOADS_URL'] + probe + "/" + finalFilename
# Return success webpage
return render_template('successful.html', url=url_download, tables=df_table)
else:
# No POST Found
return render_template('error.html')
## Force regenerate QC
@app.route('/regenerate')
def regenerate():
error_list = []
#for each file in raw folder, execute all QC
PATH = './dataset/FIRe/raw'
for filename in os.listdir(PATH):
try:
filename_nn = probeutils.execution_NN(filename)
probeutils.execution_PAR(filename_nn)
except Exception as err:
#print(filename)
#print(repr(err))
error_list.append([filename, repr(err)])
#print('Regenerate FIRe done')
PATH = './dataset/PhycoCTD/raw'
for filename in os.listdir(PATH):
try:
probeutils.check_if_old_phyco(filename)
probeutils.execution_pb_phyco(filename)
except Exception as err:
#print(filename)
#print(repr(err))
error_list.append([filename, repr(err)])
#print('Regenerate Phyco done')
return render_template('regenerate.html', error_list=error_list)
if __name__ == '__main__':
app.run()

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from datetime import datetime
from shutil import copy2
import pandas as pd
import numpy as np
import os, csv
UPLOAD_FOLDER = './dataset/'
tableClass = 'table table-striped table-sm table-responsive'
def get_date(probe, file):
''' Test utils file '''
return datetime.now().strftime("%Y-%m-%d-%H:%M:%S")
# TODO:
# - Check if is a good file
#
#def checkUploadedFile(probe, file):
# return 1
# TODO:
# - clean the head of csv, need to extract info an remove the %% (maybe new file with metadata info?) [done]
# - create the empty csv, first row with headers [done]
# - desviation and more data things
def process_castaway(file):
try:
# Copy raw file to process folder
with open(file) as CastAwayFile:
filename = os.path.basename(CastAwayFile.name).strip('raw-')
processFilePath = os.path.join(
UPLOAD_FOLDER, 'CastAway', filename)
#copy2(file, processFilePath)
# Getting some metadata info
#with open(file, newline='') as castfile:
# lines = castfile.readlines()
# device = lines[0].split(',')[1].replace('\r\n', '')
# filename = lines[1].split(',')[1].replace('\r\n', '')
# start_latitude = lines[9].split(',')[1].replace('\r\n', '')
# start_longitude = lines[10].split(',')[1].replace('\r\n', '')
# start_altitude = lines[11].split(',')[1].replace('\r\n', '')
# castfile.close()
# Opening the csv with pandas
df = pd.read_csv(file, skiprows=28)
# Extract perfil bajada, el 1 es por el header
index_max = df['Depth (Meter)'].idxmax() + 1
#df_perfilBajada = df[df['depth'].between(0, df['depth'].max())] # No funciona muy bien
# Limitamos a solo el perfil de bajada
df_perfilBajada = df[:index_max]
# Guardamos solo el perfilBajada en carpeta PB
if not os.path.exists(os.path.join(UPLOAD_FOLDER, 'CastAway', 'PB')):
os.makedirs(os.path.join(UPLOAD_FOLDER, 'CastAway', 'PB'))
filenamePB = filename.strip('.csv') + '-PB.csv'
perfilBajadaFilePath = os.path.join(
UPLOAD_FOLDER, 'CastAway', 'PB', filenamePB)
df_perfilBajada.to_csv(perfilBajadaFilePath, index=False)
# Trying to show Dataframe on webpage
return df.to_html(classes=tableClass)
except Exception as ex:
print('Exception: '+repr(ex))
return ex
def process_suna(file):
try:
df = pd.read_csv(file, encoding="ISO-8859-1", header=None)
#df.columns = ['fechaHora', 'INSTRUMENT', 'Start-time', 'Nitrato(uMol/L)','Nitrato(MG/L)', 'ERROR', 'T_lamp', ]
#if not os.path.exists(os.path.join(UPLOAD_FOLDER, 'SUNA', 'HEAD')):
# os.makedirs(os.path.join(UPLOAD_FOLDER, 'SUNA', 'HEAD'))
# Return webpage
return df.to_html(classes=tableClass)
except Exception as ex:
print('Exception: '+repr(ex))
return ex
# TODO:
# - Ask for FIRe examples, actually only bin files found (done)
# - Extract file to process folder (done)
# - Save a File with PAR info
# - Headers on email (ask for new headers)[done]
# - Remove negative values (this, done)
# - Arrange similar windows depth and do measure
def process_fire(file):
''' Processing FIRe '''
try:
# Copy raw file to process folder
with open(file) as FIReFile:
filename_raw = os.path.basename(FIReFile.name)
filename = os.path.basename(FIReFile.name).strip('raw-')
#raw_file_path = os.path.join(UPLOAD_FOLDER, 'FIRe', 'raw', filename_raw)
processFilePath = os.path.join(
UPLOAD_FOLDER, 'FIRe', filename)
#copy2(file, processFilePath)
# First, need to check the csv headers
# Open the process file with pandas
df = pd.read_csv(file, header=None)
# Headers (now working fine)
df.columns = ['fechaHora', 'estacion', 'fecha', 'hora', 'profundidad', 'Fo', 'Fm', 'Fv', 'Fv/Fm', 'p', 'Abs_rel', 'Abs_abs', 'led_light', 'ETR', 'coma1', 'coma2', 'coma3', 'coma4', 'coma5', 'coma6','error_norm', 'PAR', 'V', 'cero1', 'cero2', 'cero3', 'cero4', 'raro']
df.loc[:, 'coma1'] = 0
df.loc[:, 'coma2'] = 0
df.loc[:, 'coma3'] = 0
df.loc[:, 'coma4'] = 0
df.loc[:, 'coma5'] = 0
df.loc[:, 'coma6'] = 0
# Fixing empty values
#df.to_csv(os.path.join(UPLOAD_FOLDER, 'FIRe', 'raw', 'raw-'+filename), index=False)
filename_nn = execution_NN(filename_raw)
execution_PAR(filename_nn)
return df.to_html(classes=tableClass)
except Exception as ex:
print('Exception: '+repr(ex))
return ex
# TODO:
# - Only perfil bajada (done)
def process_phyco(file):
''' Processing PhycoCTD'''
try:
# Copy raw file to process folder
with open(file, "r+") as phycoFile:
# Sustract raw- of filename
filename_raw = os.path.basename(phycoFile.name)
filename = os.path.basename(phycoFile.name).strip('raw-')
processFilePath = os.path.join(
UPLOAD_FOLDER, 'PhycoCTD', filename)
#copy2(file, processFilePath)
# Working with the process file
df = pd.read_csv(file, delimiter=';')
check_if_old_phyco(filename_raw)
execution_pb_phyco(filename_raw)
# Return webpage
return df.to_html(classes=tableClass)
except Exception as ex:
print('Exception: '+repr(ex))
return ex
def check_if_old_phyco(filename):
# Checking if old file csv
PATH = os.path.join(UPLOAD_FOLDER, 'PhycoCTD', 'raw', filename)
with open(PATH, "r+") as phycoFile:
# Check if old version
line = phycoFile.readline()
if (',' in line):
old = True
else:
old = False
if (old == True):
df_old = pd.read_csv(PATH, header=None, skiprows=1)
if (len(df_old.columns) == 16):
df_old.columns = ['station', 'latitude', 'longitude', 'time', 'depth', 'temp1', 'temp2', 'cdom[gain]',
'cdom[ppb]', 'cdom[mv]', 'pe[gain]', 'pe[ppb]', 'pe[mv]', 'chl[gain]', 'chl[ppb]', 'chl[mv]']
else:
df_old.columns = ['station', 'time', 'depth', 'temp1', 'temp2', 'cdom[gain]', 'cdom[ppb]',
'cdom[mv]', 'pe[gain]', 'pe[ppb]', 'pe[mv]', 'chl[gain]', 'chl[ppb]', 'chl[mv]']
raw_path = os.path.join(UPLOAD_FOLDER, 'PhycoCTD', 'raw', filename)
df_old.to_csv(raw_path, index=False, sep=';')
def execution_pb_phyco(filename):
# Guardamos solo el perfilBajada
if not os.path.exists(os.path.join(UPLOAD_FOLDER, 'PhycoCTD', 'PB')):
os.makedirs(os.path.join(UPLOAD_FOLDER, 'PhycoCTD', 'PB'))
PATH = os.path.join(UPLOAD_FOLDER, 'PhycoCTD', 'raw', filename)
df = pd.read_csv(PATH, delimiter=';')
# Checking if NaN values exists [for hack lab version csv upload]
if (df['temp2'].isnull().sum() > 0):
df.loc[:, 'temp2'] = 0
df = df.dropna()
# Extract perfil bajada, el 1 es por el header
index_max = df['depth'].idxmax() + 1
#df_perfilBajada = df[df['depth'].between(0, df['depth'].max())] # No funciona muy bien
# Limitamos a solo el perfil de bajada
df_pb= df[:index_max]
filename_pb = filename.strip('raw-').strip('.csv') + '-PB.csv'
pb_path = os.path.join(UPLOAD_FOLDER, 'PhycoCTD', 'PB', filename_pb)
df_pb.to_csv(pb_path, sep=';', index=False)
def execution_NN(filename):
PATH = os.path.join(UPLOAD_FOLDER, 'FIRe', 'raw', filename)
df = pd.read_csv(PATH, header=None)
# Headers (now working fine)
df.columns = ['fechaHora', 'estacion', 'fecha', 'hora', 'profundidad', 'Fo', 'Fm', 'Fv', 'Fv/Fm', 'p', 'Abs_rel', 'Abs_abs', 'led_light',
'ETR', 'coma1', 'coma2', 'coma3', 'coma4', 'coma5', 'coma6', 'error_norm', 'PAR', 'V', 'cero1', 'cero2', 'cero3', 'cero4', 'raro']
df.loc[:, 'coma1'] = 0
df.loc[:, 'coma2'] = 0
df.loc[:, 'coma3'] = 0
df.loc[:, 'coma4'] = 0
df.loc[:, 'coma5'] = 0
df.loc[:, 'coma6'] = 0
# NonNegative values rutine
if not os.path.exists(os.path.join(UPLOAD_FOLDER, 'FIRe', 'NN')):
os.makedirs(os.path.join(UPLOAD_FOLDER, 'FIRe', 'NN'))
# Remove rows with negatives values
df_nn = df[(df.iloc[:, 4:27] >= 0).all(1)]
filename_nn = filename.strip('raw-').strip('.csv') + '-NN.csv'
nonnegative_path = os.path.join(UPLOAD_FOLDER, 'FIRe', 'NN', filename_nn)
df_nn.to_csv(nonnegative_path, index=False)
return filename_nn
def execution_PAR(filename):
# PAR rutine
if not os.path.exists(os.path.join(UPLOAD_FOLDER, 'FIRe', 'PAR')):
os.makedirs(os.path.join(UPLOAD_FOLDER, 'FIRe', 'PAR'))
PATH = os.path.join(UPLOAD_FOLDER, 'FIRe', 'NN', filename)
df = pd.read_csv(PATH)
# PAR execution
PAR_columns = ['estacion', 'fecha', 'profundidad', 'Fo', 'Fm', 'Fv', 'Fv/Fm', 'p', 'Abs_rel', 'Abs_abs', 'led_light',
'ETR', 'error_norm', 'PAR']
df_PAR = pd.DataFrame(columns=PAR_columns)
index_max = df['profundidad'].idxmax()
index_min = df['profundidad'].idxmin() + 1
depth_list = df[index_max:index_min]['profundidad'].to_list()
last_value = df['profundidad'].max()
similar_depth = []
for i in range(len(depth_list)):
#print(depth_list[i])
if (abs(last_value - depth_list[i]) <= 2000):
last_value = depth_list[i]
similar_depth.append(depth_list[i])
elif (abs(last_value - depth_list[i]) >= 6000):
## Save the actual list to DataFrame
#print(similar_depth)
index_first = pd.to_numeric(df.index[df['profundidad'] == similar_depth[0]])[0]
index_last = pd.to_numeric(df.index[df['profundidad'] == similar_depth[-1]])[0] + 1
df_range = df.iloc[index_first:index_last]
# Working with df_range
estacion = df['estacion'][0]
fecha = df['fecha'][0]
profundidad = df_range['profundidad'].mean()
Fo = df_range['Fo'].mean()
Fm = df_range['Fm'].mean()
Fv = df_range['Fv'].mean()
FvFm = df_range['Fv/Fm'].mean()
p = df_range['p'].mean()
Abs_rel = df_range['Abs_rel'].mean()
Abs_abs = df_range['Abs_abs'].mean()
led_light = df_range['led_light'].mean()
ETR = df_range['ETR'].mean()
error_norm = df_range['error_norm'].mean()
PAR = df_range['PAR'].mean()
data = [estacion, fecha, profundidad, Fo, Fm, Fv, FvFm, p, Abs_rel, Abs_abs, led_light, ETR, error_norm, PAR]
row = pd.Series(data, index=PAR_columns)
df_PAR = df_PAR.append(row, ignore_index=True)
## Empty the list
similar_depth = []
last_value = depth_list[i]
## Adding to the new list
similar_depth.append(depth_list[i])
# Saving the DataFrame
# TODO: check last values, around 400 depth
filenamePAR = filename.strip('-NN.csv') + '-PAR.csv'
PARFilePath = os.path.join(UPLOAD_FOLDER, 'FIRe', 'PAR', filenamePAR)
df_PAR.to_csv(PARFilePath, index=False)

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requirements.txt Normal file
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Flask
pandas
meinheld

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/*! HTML5 Boilerplate v7.3.0 | MIT License | https://html5boilerplate.com/ */
/* main.css 2.0.0 | MIT License | https://github.com/h5bp/main.css#readme */
/*
* What follows is the result of much research on cross-browser styling.
* Credit left inline and big thanks to Nicolas Gallagher, Jonathan Neal,
* Kroc Camen, and the H5BP dev community and team.
*/
/* ==========================================================================
Base styles: opinionated defaults
========================================================================== */
html {
color: #222;
font-size: 1em;
line-height: 1.4;
}
/*
* Remove text-shadow in selection highlight:
* https://twitter.com/miketaylr/status/12228805301
*
* Vendor-prefixed and regular ::selection selectors cannot be combined:
* https://stackoverflow.com/a/16982510/7133471
*
* Customize the background color to match your design.
*/
::-moz-selection {
background: #b3d4fc;
text-shadow: none;
}
::selection {
background: #b3d4fc;
text-shadow: none;
}
/*
* A better looking default horizontal rule
*/
hr {
display: block;
height: 1px;
border: 0;
border-top: 1px solid #ccc;
margin: 1em 0;
padding: 0;
}
/*
* Remove the gap between audio, canvas, iframes,
* images, videos and the bottom of their containers:
* https://github.com/h5bp/html5-boilerplate/issues/440
*/
audio,
canvas,
iframe,
img,
svg,
video {
vertical-align: middle;
}
/*
* Remove default fieldset styles.
*/
fieldset {
border: 0;
margin: 0;
padding: 0;
}
/*
* Allow only vertical resizing of textareas.
*/
textarea {
resize: vertical;
}
/* ==========================================================================
Browser Upgrade Prompt
========================================================================== */
.browserupgrade {
margin: 0.2em 0;
background: #ccc;
color: #000;
padding: 0.2em 0;
}
/* ==========================================================================
Author's custom styles
========================================================================== */
/* ==========================================================================
Helper classes
========================================================================== */
/*
* Hide visually and from screen readers
*/
.hidden {
display: none !important;
}
/*
* Hide only visually, but have it available for screen readers:
* https://snook.ca/archives/html_and_css/hiding-content-for-accessibility
*
* 1. For long content, line feeds are not interpreted as spaces and small width
* causes content to wrap 1 word per line:
* https://medium.com/@jessebeach/beware-smushed-off-screen-accessible-text-5952a4c2cbfe
*/
.sr-only {
border: 0;
clip: rect(0, 0, 0, 0);
height: 1px;
margin: -1px;
overflow: hidden;
padding: 0;
position: absolute;
white-space: nowrap;
width: 1px;
/* 1 */
}
/*
* Extends the .sr-only class to allow the element
* to be focusable when navigated to via the keyboard:
* https://www.drupal.org/node/897638
*/
.sr-only.focusable:active,
.sr-only.focusable:focus {
clip: auto;
height: auto;
margin: 0;
overflow: visible;
position: static;
white-space: inherit;
width: auto;
}
/*
* Hide visually and from screen readers, but maintain layout
*/
.invisible {
visibility: hidden;
}
/*
* Clearfix: contain floats
*
* For modern browsers
* 1. The space content is one way to avoid an Opera bug when the
* `contenteditable` attribute is included anywhere else in the document.
* Otherwise it causes space to appear at the top and bottom of elements
* that receive the `clearfix` class.
* 2. The use of `table` rather than `block` is only necessary if using
* `:before` to contain the top-margins of child elements.
*/
.clearfix:before,
.clearfix:after {
content: " ";
/* 1 */
display: table;
/* 2 */
}
.clearfix:after {
clear: both;
}
/* ==========================================================================
EXAMPLE Media Queries for Responsive Design.
These examples override the primary ('mobile first') styles.
Modify as content requires.
========================================================================== */
@media only screen and (min-width: 35em) {
/* Style adjustments for viewports that meet the condition */
}
@media print,
(-webkit-min-device-pixel-ratio: 1.25),
(min-resolution: 1.25dppx),
(min-resolution: 120dpi) {
/* Style adjustments for high resolution devices */
}
/* ==========================================================================
Print styles.
Inlined to avoid the additional HTTP request:
https://www.phpied.com/delay-loading-your-print-css/
========================================================================== */
@media print {
*,
*:before,
*:after {
background: transparent !important;
color: #000 !important;
/* Black prints faster */
box-shadow: none !important;
text-shadow: none !important;
}
a,
a:visited {
text-decoration: underline;
}
a[href]:after {
content: " (" attr(href) ")";
}
abbr[title]:after {
content: " (" attr(title) ")";
}
/*
* Don't show links that are fragment identifiers,
* or use the `javascript:` pseudo protocol
*/
a[href^="#"]:after,
a[href^="javascript:"]:after {
content: "";
}
pre {
white-space: pre-wrap !important;
}
pre,
blockquote {
border: 1px solid #999;
page-break-inside: avoid;
}
/*
* Printing Tables:
* https://web.archive.org/web/20180815150934/http://css-discuss.incutio.com/wiki/Printing_Tables
*/
thead {
display: table-header-group;
}
tr,
img {
page-break-inside: avoid;
}
p,
h2,
h3 {
orphans: 3;
widows: 3;
}
h2,
h3 {
page-break-after: avoid;
}
}

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/*! normalize.css v8.0.1 | MIT License | github.com/necolas/normalize.css */
/* Document
========================================================================== */
/**
* 1. Correct the line height in all browsers.
* 2. Prevent adjustments of font size after orientation changes in iOS.
*/
html {
line-height: 1.15; /* 1 */
-webkit-text-size-adjust: 100%; /* 2 */
}
/* Sections
========================================================================== */
/**
* Remove the margin in all browsers.
*/
body {
margin: 0;
}
/**
* Render the `main` element consistently in IE.
*/
main {
display: block;
}
/**
* Correct the font size and margin on `h1` elements within `section` and
* `article` contexts in Chrome, Firefox, and Safari.
*/
h1 {
font-size: 2em;
margin: 0.67em 0;
}
/* Grouping content
========================================================================== */
/**
* 1. Add the correct box sizing in Firefox.
* 2. Show the overflow in Edge and IE.
*/
hr {
box-sizing: content-box; /* 1 */
height: 0; /* 1 */
overflow: visible; /* 2 */
}
/**
* 1. Correct the inheritance and scaling of font size in all browsers.
* 2. Correct the odd `em` font sizing in all browsers.
*/
pre {
font-family: monospace, monospace; /* 1 */
font-size: 1em; /* 2 */
}
/* Text-level semantics
========================================================================== */
/**
* Remove the gray background on active links in IE 10.
*/
a {
background-color: transparent;
}
/**
* 1. Remove the bottom border in Chrome 57-
* 2. Add the correct text decoration in Chrome, Edge, IE, Opera, and Safari.
*/
abbr[title] {
border-bottom: none; /* 1 */
text-decoration: underline; /* 2 */
text-decoration: underline dotted; /* 2 */
}
/**
* Add the correct font weight in Chrome, Edge, and Safari.
*/
b,
strong {
font-weight: bolder;
}
/**
* 1. Correct the inheritance and scaling of font size in all browsers.
* 2. Correct the odd `em` font sizing in all browsers.
*/
code,
kbd,
samp {
font-family: monospace, monospace; /* 1 */
font-size: 1em; /* 2 */
}
/**
* Add the correct font size in all browsers.
*/
small {
font-size: 80%;
}
/**
* Prevent `sub` and `sup` elements from affecting the line height in
* all browsers.
*/
sub,
sup {
font-size: 75%;
line-height: 0;
position: relative;
vertical-align: baseline;
}
sub {
bottom: -0.25em;
}
sup {
top: -0.5em;
}
/* Embedded content
========================================================================== */
/**
* Remove the border on images inside links in IE 10.
*/
img {
border-style: none;
}
/* Forms
========================================================================== */
/**
* 1. Change the font styles in all browsers.
* 2. Remove the margin in Firefox and Safari.
*/
button,
input,
optgroup,
select,
textarea {
font-family: inherit; /* 1 */
font-size: 100%; /* 1 */
line-height: 1.15; /* 1 */
margin: 0; /* 2 */
}
/**
* Show the overflow in IE.
* 1. Show the overflow in Edge.
*/
button,
input { /* 1 */
overflow: visible;
}
/**
* Remove the inheritance of text transform in Edge, Firefox, and IE.
* 1. Remove the inheritance of text transform in Firefox.
*/
button,
select { /* 1 */
text-transform: none;
}
/**
* Correct the inability to style clickable types in iOS and Safari.
*/
button,
[type="button"],
[type="reset"],
[type="submit"] {
-webkit-appearance: button;
}
/**
* Remove the inner border and padding in Firefox.
*/
button::-moz-focus-inner,
[type="button"]::-moz-focus-inner,
[type="reset"]::-moz-focus-inner,
[type="submit"]::-moz-focus-inner {
border-style: none;
padding: 0;
}
/**
* Restore the focus styles unset by the previous rule.
*/
button:-moz-focusring,
[type="button"]:-moz-focusring,
[type="reset"]:-moz-focusring,
[type="submit"]:-moz-focusring {
outline: 1px dotted ButtonText;
}
/**
* Correct the padding in Firefox.
*/
fieldset {
padding: 0.35em 0.75em 0.625em;
}
/**
* 1. Correct the text wrapping in Edge and IE.
* 2. Correct the color inheritance from `fieldset` elements in IE.
* 3. Remove the padding so developers are not caught out when they zero out
* `fieldset` elements in all browsers.
*/
legend {
box-sizing: border-box; /* 1 */
color: inherit; /* 2 */
display: table; /* 1 */
max-width: 100%; /* 1 */
padding: 0; /* 3 */
white-space: normal; /* 1 */
}
/**
* Add the correct vertical alignment in Chrome, Firefox, and Opera.
*/
progress {
vertical-align: baseline;
}
/**
* Remove the default vertical scrollbar in IE 10+.
*/
textarea {
overflow: auto;
}
/**
* 1. Add the correct box sizing in IE 10.
* 2. Remove the padding in IE 10.
*/
[type="checkbox"],
[type="radio"] {
box-sizing: border-box; /* 1 */
padding: 0; /* 2 */
}
/**
* Correct the cursor style of increment and decrement buttons in Chrome.
*/
[type="number"]::-webkit-inner-spin-button,
[type="number"]::-webkit-outer-spin-button {
height: auto;
}
/**
* 1. Correct the odd appearance in Chrome and Safari.
* 2. Correct the outline style in Safari.
*/
[type="search"] {
-webkit-appearance: textfield; /* 1 */
outline-offset: -2px; /* 2 */
}
/**
* Remove the inner padding in Chrome and Safari on macOS.
*/
[type="search"]::-webkit-search-decoration {
-webkit-appearance: none;
}
/**
* 1. Correct the inability to style clickable types in iOS and Safari.
* 2. Change font properties to `inherit` in Safari.
*/
::-webkit-file-upload-button {
-webkit-appearance: button; /* 1 */
font: inherit; /* 2 */
}
/* Interactive
========================================================================== */
/*
* Add the correct display in Edge, IE 10+, and Firefox.
*/
details {
display: block;
}
/*
* Add the correct display in all browsers.
*/
summary {
display: list-item;
}
/* Misc
========================================================================== */
/**
* Add the correct display in IE 10+.
*/
template {
display: none;
}
/**
* Add the correct display in IE 10.
*/
[hidden] {
display: none;
}

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<svg width="200" height="200" xmlns="http://www.w3.org/2000/svg" viewBox="0 0 200 200" preserveAspectRatio="none"><defs><style type="text/css">#holder_171aa8443cc text { fill:rgba(255,255,255,.75);font-weight:normal;font-family:Helvetica, monospace;font-size:10pt } </style></defs><g id="holder_171aa8443cc"><rect width="200" height="200" fill="#777"></rect><g><text x="74.41666603088379" y="104.25000009536743">200x200</text></g></g></svg>
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// Avoid `console` errors in browsers that lack a console.
(function() {
var method;
var noop = function () {};
var methods = [
'assert', 'clear', 'count', 'debug', 'dir', 'dirxml', 'error',
'exception', 'group', 'groupCollapsed', 'groupEnd', 'info', 'log',
'markTimeline', 'profile', 'profileEnd', 'table', 'time', 'timeEnd',
'timeline', 'timelineEnd', 'timeStamp', 'trace', 'warn'
];
var length = methods.length;
var console = (window.console = window.console || {});
while (length--) {
method = methods[length];
// Only stub undefined methods.
if (!console[method]) {
console[method] = noop;
}
}
}());
// Place any jQuery/helper plugins in here.
function toggleSelect(checkbox, select) {
var isChecked = document.getElementById(checkbox).checked;
document.getElementById(select).disabled = !isChecked;
}

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<!DOCTYPE html>
<html class="no-js" lang="">
<head>
<meta charset="utf-8" />
<title>{% block title %}{% endblock %} - UPCT</title>
<meta name="description" content="" />
<meta name="viewport" content="width=device-width, initial-scale=1" />
<meta name="theme-color" content="#fafafa" />
<link rel="manifest" href="site.webmanifest" />
<link rel="apple-touch-icon" href="icon.png" />
<link rel="stylesheet" type="text/css" href="{{ url_for('static',filename='css/normalize.css') }}" />
<link rel="stylesheet" type="text/css" href="{{ url_for('static',filename='css/main.css') }}" />
<link rel="stylesheet" href="https://stackpath.bootstrapcdn.com/bootstrap/4.4.1/css/bootstrap.min.css"
integrity="sha384-Vkoo8x4CGsO3+Hhxv8T/Q5PaXtkKtu6ug5TOeNV6gBiFeWPGFN9MuhOf23Q9Ifjh" crossorigin="anonymous" />
<script src="https://code.jquery.com/jquery-3.4.1.js"
integrity="sha256-WpOohJOqMqqyKL9FccASB9O0KwACQJpFTUBLTYOVvVU=" crossorigin="anonymous"></script>
<script src="https://cdn.jsdelivr.net/npm/popper.js@1.16.0/dist/umd/popper.min.js"
integrity="sha384-Q6E9RHvbIyZFJoft+2mJbHaEWldlvI9IOYy5n3zV9zzTtmI3UksdQRVvoxMfooAo"
crossorigin="anonymous"></script>
<script src="https://stackpath.bootstrapcdn.com/bootstrap/4.4.1/js/bootstrap.min.js"
integrity="sha384-wfSDF2E50Y2D1uUdj0O3uMBJnjuUD4Ih7YwaYd1iqfktj0Uod8GCExl3Og8ifwB6"
crossorigin="anonymous"></script>
<script src="{{ url_for('static',filename='js/plugins.js') }}"></script>
</head>
<body>
<!--[if IE]>
<p class="browserupgrade">
You are using an <strong>outdated</strong> browser. Please
<a href="https://browsehappy.com/">upgrade your browser</a> to improve
your experience and security.
</p>
<![endif]-->
<div class="d-flex flex-column flex-md-row align-items-center p-3 px-md-4 mb-3 bg-white border-bottom shadow-sm">
<h5 class="my-0 mr-md-auto font-weight-normal">SDC Lifecycle 0.1</h5>
<nav class="nav-item">
<a class="nav-link" href="https://download.med.upct.es">🗄️ Obtener Datos</a>
</nav>
</div>
<div class="alert alert-danger" role="alert">
Tool is in heavy development.
</div>
{% block content %}{% endblock %}
</body>
</html>

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{% extends "base.html" %}
{% block title %}ERROR{% endblock %}
{% block content %}
<div class="container">
<div class="card-deck mb-3 text-center"></div>
<h3>ERROR en la subida</h3>
</div>
{% endblock %}

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{% extends "base.html" %}
{% block title %}DONE{% endblock %}
{% block content %}
<div class="container">
<div class="card-deck mb-3 text-center"></div>
<h3>Control de calidad aplicado. </h3>
<!-- Printing errors -->
<table class="table">
{% for error in error_list %}
<tr>
<td>{{ error[0] }}</td>
<td>{{ error[1] }}</td>
</tr>
{% endfor %}
</table>
</div>
{% endblock %}

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{% extends "base.html" %}
{% block title %}OK{% endblock %}
{% block content %}
<div class="container">
<div class="card-deck mb-3 text-center">
<div class="card">
<div class="alert alert-success text-center" role="alert">
Datos subidos con exito
</div>
<div class="card-body">
<a href="/" type="button" class="btn btn-outline-success btn-block"
style="margin-bottom: 50px">Volver</a>
<a href="{{ url }}" type="button" class="btn btn-outline-primary btn-block">Descargar Archivo</a>
<a class="btn btn-outline-info btn-block" data-toggle="collapse" href="#collapseExample" role="button"
aria-expanded="false" aria-controls="collapseExample">
Mostrar tabla
</a>
<div class="collapse" id="collapseExample">
<div class="card card-body">
{{ tables|safe }}
</div>
</div>
</div> <!-- End Card-body -->
</div> <!-- End Card -->
</div> <!-- End Card-deck -->
</div> <!-- End Container-->
{% endblock %}

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{% extends "base.html" %}
{% block title %}Subida{% endblock %}
{% block content %}
<!-- Row Header -->
<div class="px-3 py-3 pt-md-5 pb-md-4 mx-auto text-center">
<h1 class="display-4">Sensores</h1>
</div>
<div class="container">
<div class="card-deck mb-3 text-center"></div>
<!-- Sensors row -->
<div class="row">
{% for i in probes %}
<div class="col-sm">
<div class="card mb-4 shadow-sm">
<div class="card-header">
<h4 class="my-0 font-weight-normal">{{ i.sensor }}</h4>
</div>
<div class="card-body">
<div class="text-center">
<img src="{{ url_for('static',filename='img/'+i.img) }}" class="rounded" alt="..."
height="200px" width="200px" />
</div>
</div>
<button type="button" class="btn btn-primary" data-toggle="modal" data-target="#upload{{i.sensor}}">
Subir datos
</button>
</div>
</div>
{% endfor%}
</div>
<!-- Setting up the modal foreach probe -->
{% for i in probes %}
<div class="modal fade" id="upload{{i.sensor}}" role="dialog">
<div class="modal-dialog modal-lg">
<!-- Modal content-->
<div class="modal-content">
<div class="modal-header">
<h4 class="modal-title">Subir datos de {{ i.sensor }}</h4>
<button type="button" class="close" data-dismiss="modal">
&times;
</button>
</div>
<div class="modal-body">
<!-- Modal header -->
<div class="upload-header px-3 py-3 pt-md-5 pb-md-4 mx-auto text-center">
<h2 class="display-5">{{ i.sensor }}</h2>
</div>
<div class="container">
<div class="text-center">
<!-- Modal form -->
<form class="list-group list-group-flush" action="{{pagename}}/uploader" method="POST"
enctype="multipart/form-data">
<!-- File input -->
<div class="list-group-item" style="padding-left: 50px;">
<input type="file" class="form-control-file" name="file" />
</div>
<!-- Sensor select -->
<div class="form-group required" style="padding-top: 10px;">
<label class="form-check-label" for="activeProbe" style="padding-left: 5px;">Escoge
el sensor utilizado</label>
<select name="activeProbe" id="activeProbe">
{% for j in i.active %}
<option value="{{ j }}">{{ j }}</option>
{% endfor %}
</select>
</div>
<!-- Force station -->
<div class="form-group">
<input class="form-check-input" type="checkbox" name="forceStation{{i.sensor}}"
id="forceStation{{i.sensor}}"
onchange="toggleSelect('forceStation{{i.sensor}}', 'stations{{i.sensor}}')">
<label class="form-check-label" for="forceStation{{i.sensor}}"
style="padding-left: 5px;">
Forzar estación
</label>
<label class="form-check-label" for="stations{{i.sensor}}"
style="padding-left: 5px;">Selecciona la estación utilizada</label>
<select name="stations{{i.sensor}}" id="stations{{i.sensor}}" disabled>
{% for j in i.stations %}
<option value="{{ j }}">{{ j }}</option>
{% endfor %}
</select>
</div>
<!-- Apply quality control -->
<div class="list-group-item" style="padding-bottom: 50px;">
<input class="form-check-input" type="checkbox" id="autoSizingCheck" checked>
<label class="form-check-label" for="autoSizingCheck" style="padding-left: 5px;">
Aplicar control de calidad
</label>
</div>
<!-- Submit -->
<input type="hidden" value="{{i.sensor}}" name="probe" />
<button type="submit" class="btn btn-primary btn-lg btn-block">Subir CSV</button>
</form>
</div>
</div> <!-- Close Modal Container Body -->
</div> <!-- Close Modal Body -->
</div> <!-- Close Modal Content -->
</div> <!-- Close Modal dialog -->
</div> <!-- Close Modal -->
{% endfor %}
<!-- End Sensors Modals -->
</div> <!-- Close container field -->
{% endblock %}