api.py

import Settings
import sqlite3 as lite
import tornado.web
import tornado.websocket
import json
import os
import datetime
import easyaccess as ea
import MySQLdb as mydb
from celery import Celery
import yaml
import jira_ticket
from smtp import email_utils


class BaseHandler(tornado.web.RequestHandler):
    def get_current_user(self):
        return self.get_secure_cookie("usera")


def humantime(s):
    if s < 60:
        return "%d seconds" % s
    else:
        mins = s/60
        secs = s % 60
        if mins < 60:
            return "%d minutes and %d seconds" % (mins, secs)
        else:
            hours = mins/60
            mins = mins % 60
            if hours < 24:
                return "%d hours and %d minutes" % (hours, mins)
            else:
                days = hours/24
                hours = hours % 24
                return "%d days and %d hours" % (days, hours)


class MyExamplesHandler(BaseHandler):
    @tornado.web.authenticated
    def get(self):
        query0 = """--
-- Example Query --
-- This query selects 0.001% of the data
SELECT RA, DEC, MAG_AUTO_G, TILENAME from DR1_MAIN sample(0.001)
"""
        query0ra = """--
-- Example Query --
-- This query selects the first 1000 rows from a RA/DEC region
SELECT ALPHAWIN_J2000 RAP,DELTAWIN_J2000 DECP, MAG_AUTO_G, TILENAME
FROM DR1_MAIN
WHERE
RA BETWEEN 40.0 and 41.0 and
DEC BETWEEN -41 and -40 and
ROWNUM < 1001
"""
        query1 = """--
-- Example Query --
-- This query creates a Helpix map of number of starts
-- and their mean magnitude on a resolution of NSIDE = 1024
-- using NEST Schema
SELECT
count(main.MAG_AUTO_I) COUNT,
main.HPIX_1024
FROM DR1_MAIN main
WHERE
  main.WAVG_SPREAD_MODEL_I + 3.0*main.WAVG_SPREADERR_MODEL_I < 0.005 and
  main.WAVG_SPREAD_MODEL_I > -1 and
  main.IMAFLAGS_ISO_I = 0 and
  main.MAG_AUTO_I < 21
GROUP BY main.HPIX_1024
"""
        query2 = """--
-- Example Query --
-- This query selects stars around the center of glubular cluster M2
SELECT
  COADD_OBJECT_ID,RA,DEC,
  MAG_AUTO_G G,
  MAG_AUTO_R R,
  WAVG_MAG_PSF_G G_PSF,
  WAVG_MAG_PSF_R R_PSF
FROM DR1_MAIN
WHERE
   RA between 323.36-0.12 and 323.36+0.12 and
   DEC between -0.82-0.12 and -0.82+0.12 and
   WAVG_SPREAD_MODEL_I + 3.0*WAVG_SPREADERR_MODEL_I < 0.005 and
   WAVG_SPREAD_MODEL_I > -1 and
   IMAFLAGS_ISO_G = 0 and
   IMAFLAGS_ISO_R = 0 and
   FLAGS_G < 4 and
   FLAGS_R < 4
"""
        query3 = """--
-- Example Query --
-- This query selects  a sample of bright galaxies
SELECT dr1.RA RA, dr1.DEC DEC, dr1.COADD_OBJECT_ID ID
FROM dr1_main sample(0.01) dr1
WHERE
dr1.MAG_AUTO_G < 18 and
dr1.WAVG_SPREAD_MODEL_I + 3.0*dr1.WAVG_SPREADERR_MODEL_I > 0.005 and
dr1.WAVG_SPREAD_MODEL_I + 1.0*dr1.WAVG_SPREADERR_MODEL_I > 0.003 and
dr1.WAVG_SPREAD_MODEL_I - 1.0*dr1.WAVG_SPREADERR_MODEL_I > 0.001 and
dr1.WAVG_SPREAD_MODEL_I > -1 and
dr1.IMAFLAGS_ISO_G = 0 and
dr1.IMAFLAGS_ISO_R = 0 and
dr1.IMAFLAGS_ISO_I = 0 and
dr1.FLAGS_G < 4 and
dr1.FLAGS_R < 4 and
dr1.FLAGS_I < 4 and
dr1.NEPOCHS_G > 0 and
dr1.NEPOCHS_R > 0 and
dr1.NEPOCHS_I > 0
        """
        query4 = """--
-- Example Query --
-- This query creates a Helpix map of number of galaxies
-- and their mean magnitude on a resolution of NSIDE = 1024
-- using NEST Schema
SELECT count(dr1.MAG_AUTO_I) COUNT,avg(dr1.MAG_AUTO_I) AVERAGE,dr1.HPIX_1024
FROM DR1_MAIN dr1
where
dr1.WAVG_SPREAD_MODEL_I + 3.0*dr1.WAVG_SPREADERR_MODEL_I > 0.005 and
dr1.WAVG_SPREAD_MODEL_I + 1.0*dr1.WAVG_SPREADERR_MODEL_I > 0.003 and
dr1.WAVG_SPREAD_MODEL_I - 1.0*dr1.WAVG_SPREADERR_MODEL_I > 0.001 and
dr1.WAVG_SPREAD_MODEL_I > -1 and
dr1.IMAFLAGS_ISO_I = 0 and
dr1.MAG_AUTO_I < 23
group by dr1.HPIX_1024
        """
        queries = []
        queries.append({'desc': 'Sample Basic information', 'query': query0})
        queries.append({'desc': 'Limit Basic information by region and number of rows', 'query': query0ra})
        queries.append({'desc': 'Create stellar density healpix map', 'query': query1})
        queries.append({'desc': 'Select stars from M2 Globular Cluster', 'query': query2})
        queries.append({'desc': 'Sample of bright galaxies', 'query': query3})
        queries.append({'desc': 'Create galaxy density healpix map', 'query': query4})
        jjob = []
        jquery = []

        for i in range(len(queries)):
            jjob.append(queries[i]['desc'])
            jquery.append(queries[i]['query'])
        out_dict = [dict(job=jjob[i], jquery=jquery[i]) for i in range(len(jjob))]
        temp = json.dumps(out_dict, indent=4)
        self.write(temp)


class GetTileHandler(BaseHandler):
    @tornado.web.authenticated
    def post(self):
        tilename = self.get_argument('tilename', '')
        print(tilename)
        loc_user = self.get_secure_cookie("usera").decode('ascii').replace('\"', '')
        loc_passw = self.get_secure_cookie("userb").decode('ascii').replace('\"', '')
        loc_db = self.get_secure_cookie("userdb").decode('ascii').replace('\"', '')
        con = ea.connect(loc_db, user=loc_user, passwd=loc_passw)
        query = """select FITS_IMAGE_G, FITS_IMAGE_R, FITS_IMAGE_I, FITS_IMAGE_Z, FITS_IMAGE_Y,
                   FITS_IMAGE_DET, TIFF_COLOR_IMAGE, FITS_DR1_MAIN, FITS_DR1_MAGNITUDE, FITS_DR1_FLUX
                   from DR1_TILE_INFO where tilename = '{0}'""".format(tilename)
        temp_df = con.query_to_pandas(query)
        new = temp_df.transpose().reset_index()
        new.columns = ['name', 'path']
        con.close()
        self.write(new.to_json(orient='records'))

class MyLogsHandler(BaseHandler):
    @tornado.web.authenticated
    def post(self):
        loc_user = self.get_secure_cookie("usera").decode('ascii').replace('\"', '')
        jobid = self.get_argument('jobid')
        print(loc_user, jobid)
        log_path = os.path.join(Settings.WORKDIR, loc_user, jobid, 'log.log')
        log = ''
        with open(log_path, 'r') as logFile:
            for line in logFile:
                log += line+'<br>'
        temp = json.dumps(log)
        self.write(temp)





class MyJobsHandler(BaseHandler):
    @tornado.web.authenticated
    def delete(self):
        user = self.get_argument('username')
        jobid = self.get_argument('jobid')
        app = Celery()
        app.config_from_object('config.celeryconfig')
        app.control.revoke(jobid, terminate=True, signal='SIGUSR1')
        app.close()
        with open('config/mysqlconfig.yaml', 'r') as cfile:
            conf = yaml.load(cfile)['mysql']
        con = mydb.connect(**conf)
        cur = con.cursor()
        q0 = "UPDATE Jobs SET status='{0}' where job = '{1}'".format('REVOKE', jobid)
        cur.execute(q0)
        con.commit()
        con.close()

        self.finish()


    @tornado.web.authenticated
    def get(self):
        loc_user = self.get_secure_cookie("usera").decode('ascii').replace('\"', '')
        with open('config/mysqlconfig.yaml', 'r') as cfile:
            conf = yaml.load(cfile)['mysql']
        con = mydb.connect(**conf)
        cur = con.cursor()
        cur.execute("SELECT * from Jobs where user = '{0}' order by time DESC".format(loc_user))
        cc = cur.fetchall()
        con.close()
        cc = list(cc)
        jjob = []
        jstatus = []
        jobtype = []
        jtime = []
        jname = []
        jelapsed = []
        jquery = []
        jfiles = []
        jsizes = []
        jfiles_bool = []
        jquery_bool = []
        jwarning = []
        jruntime = []

        for i in range(len(cc)):
            #dd = datetime.datetime.strptime(cc[i][3], '%Y-%m-%d %H:%M:%S')
            dd = cc[i][4]
            ctime = dd.strftime('%a %b %d %H:%M:%S %Y')
            jjob.append(cc[i][1])
            jname.append(cc[i][2])
            jstatus.append(cc[i][3])
            jobtype.append(cc[i][5])
            jtime.append(ctime)
            jquery.append(cc[i][6])
            jfiles.append(cc[i][7])
            jsizes.append(cc[i][8])
            jruntime.append(cc[i][9])
            if cc[i][7] == '':
                jfiles_bool.append(False)
            else:
                jfiles_bool.append(True)
            if cc[i][6] == '':
                jquery_bool.append(False)
            else:
                jquery_bool.append(True)
            delt = (datetime.datetime.now()-dd).total_seconds()
            jelapsed.append(humantime(delt)+" ago")
            jwarning.append(delt >= 3600*24)
            if delt >= 3600*24*2:
                jfiles_bool.pop()
                jfiles_bool.append(False)
                jelapsed.pop()
                jelapsed.append(humantime(delt)+" ago (Expired)")
        out_dict = [dict(job=jjob[i], status=jstatus[i], time=jtime[i], elapsed=jelapsed[i],
                    jquery=jquery[i], jfiles=jfiles[i], jbool=jfiles_bool[i], user=loc_user,
                    jsizes=jsizes[i], jname=jname[i], jobtype=jobtype[i],
                    jquerybool=jquery_bool[i], jwarning=jwarning[i], jruntime=jruntime[i]) for i in range(len(jjob))]
        temp = json.dumps(out_dict, indent=4)
        self.write(temp)


class MyTablesHandler(BaseHandler):
    @tornado.web.authenticated
    def post(self):
        response = {k: self.get_argument(k) for k in self.request.arguments}
        loc_user = self.get_secure_cookie("usera").decode('ascii').replace('\"', '')
        loc_passw = self.get_secure_cookie("userb").decode('ascii').replace('\"', '')
        loc_db = self.get_secure_cookie("userdb").decode('ascii').replace('\"', '')
        con = ea.connect(loc_db, user=loc_user, passwd=loc_passw)
        query = """
        SELECT t.table_name, s.bytes/1024/1024/1024 SIZE_GBYTES, t.num_rows NROWS
        FROM user_segments s, user_tables t
        WHERE s.segment_name = t.table_name order by t.table_name
        """
        temp_df = con.query_to_pandas(query)
        con.close()
        self.write(temp_df.to_json(orient='records'))


class MyResponseHandler(BaseHandler):
    @tornado.web.authenticated
    def post(self):
        loc_user = self.get_secure_cookie("usera").decode('ascii').replace('\"', '')
        jobid = self.get_argument('jobid')
        user_folder = os.path.join(Settings.WORKDIR, loc_user)+'/'
        jsonfile = os.path.join(user_folder, jobid+'.json')
        try:
            with open(jsonfile, 'r') as data_file:
                tmp = json.load(data_file)
        except:
            tmp = ''
        self.flush()
        self.write(tmp)
        self.finish()



class DescTablesHandler(BaseHandler):
    @tornado.web.authenticated
    def post(self):
        response = {k: self.get_argument(k) for k in self.request.arguments}
        owner = self.get_argument('owner')
        table = self.get_argument('tablename')
        loc_user = self.get_secure_cookie("usera").decode('ascii').replace('\"', '')
        loc_passw = self.get_secure_cookie("userb").decode('ascii').replace('\"', '')
        loc_db = self.get_secure_cookie("userdb").decode('ascii').replace('\"', '')
        owner = 'DES_ADMIN'
        con = ea.connect(loc_db, user=loc_user, passwd=loc_passw)
        query = """
            select atc.column_name, atc.data_type,
            case atc.data_type
            when 'NUMBER' then '(' || atc.data_precision || ',' || atc.data_scale || ')'
            when 'VARCHAR2' then atc.CHAR_LENGTH || ' characters'
            else atc.data_length || ''  end as DATA_FORMAT,
            acc.comments
            from all_tab_cols atc , all_col_comments acc, all_synonyms ass
            where ass.synonym_name = '{table}' and
            atc.owner = ass.table_owner and atc.table_name = ass.table_name
            and acc.owner = ass.table_owner and acc.table_name = ass.table_name
            and acc.column_name = atc.column_name
            order by atc.column_name
            """.format(owner=owner.upper(), table=table.upper())
        temp_df = con.query_to_pandas(query)
        con.close()
        self.write(temp_df.to_json(orient='records'))


class AllTablesHandler(BaseHandler):
    @tornado.web.authenticated
    def post(self):
        response = {k: self.get_argument(k) for k in self.request.arguments}
        loc_user = self.get_secure_cookie("usera").decode('ascii').replace('\"', '')
        loc_passw = self.get_secure_cookie("userb").decode('ascii').replace('\"', '')
        loc_db = self.get_secure_cookie("userdb").decode('ascii').replace('\"', '')
        print(loc_db)
        con = ea.connect(loc_db, user=loc_user, passwd=loc_passw)
        query = """
        SELECT t.synonym_name as table_name, a.num_rows as NROWS
        FROM all_synonyms t, all_tables a
        where t.table_owner = 'DES_ADMIN' and t.table_name = a.table_name
        order by table_name;
        """
        temp_df = con.query_to_pandas(query)
        con.close()
        self.write(temp_df.to_json(orient='records'))



class DeleteHandler(BaseHandler):
    @tornado.web.authenticated
    def delete(self):
        response = {k: self.get_argument(k) for k in self.request.arguments}
        loc_user = self.get_secure_cookie("usera").decode('ascii').replace('\"', '')

        user_folder = os.path.join(Settings.WORKDIR, loc_user)+'/'
        Nd = len(response)
        with open('config/mysqlconfig.yaml', 'r') as cfile:
            conf = yaml.load(cfile)['mysql']
            con = mydb.connect(**conf)
            cur = con.cursor()
            for j in range(Nd):
                jid = response[str(j)]
                q = "DELETE from Jobs where job = '%s' and user = '%s'" % (jid, loc_user)
                cc = cur.execute(q)
                folder = os.path.join(user_folder, jid)
                print(folder)
                try:
                    os.system('rm -rf ' + folder)
                except:
                    pass
                try:
                    os.system('rm -f ' + user_folder + jid + '.*')
                except:
                    pass
            con.commit()
            con.close()

        self.set_status(200)
        self.flush()
        self.finish()




class ChangeHandler(BaseHandler):
    @tornado.web.authenticated
    def post(self):
        user = self.get_argument('username')
        jobid = self.get_argument('jobid')
        jobname = self.get_argument('jobname')
        with open('config/mysqlconfig.yaml', 'r') as cfile:
            conf = yaml.load(cfile)['mysql']
        con = mydb.connect(**conf)
        cur = con.cursor()
        q0 = "UPDATE Jobs SET name='{0}' where job = '{1}'".format(jobname, jobid)
        cur.execute(q0)
        con.commit()
        con.close()

        self.finish()

class HelpHandler(tornado.web.RequestHandler):
    """
    This class is special as it also include a post request to
    deal with the form submission
    """
    @tornado.web.asynchronous
    def post(self):
        arguments = { k.lower(): self.get_argument(k) for k in self.request.arguments }
        print(arguments)
        name = self.get_argument("name", "User")
        last = self.get_argument("lastname", "")
        email = self.get_argument("email", "")
        subject = self.get_argument("subject", "")
        question = self.get_argument("question", "")
        topic = self.get_argument("topic", "")
        topics = topic.replace(',', '\n')
        print(name, last, email, topic, question)
        valid, ticket = jira_ticket.create_ticket(name, last, email, topics, subject, question)
        print(valid)
        email_utils.send_thanks(name, email, subject, ticket)
        self.set_status(200)
        self.flush()
        self.finish()