fields = cgi.FieldStorage()
user_name = fields.getvalue("user_name")
passwd = fields.getvalue("passwd")
is_registering = fields.getvalue("is_registering")
utils.printToServer('Content-type: text/json\n\n')
status, message = "ok", "ok"
print fields
if is_registering == 'true':
#add permissions
passwd_file = "../lib/passwds.json"
perm_file = "../lib/permissions.json"
jperms = utils.fileToJson(perm_file)
jpasswds = utils.fileToJson(passwd_file)
if user_name in jpasswds:
status, message = "bad", "A user by the name '%s' already exists" % user_name
else:
m = hashlib.md5()
m.update(passwd)
jpasswds[user_name] = m.hexdigest()
utils.jsonToFile(jpasswds, passwd_file)
jperms[user_name] = {}
utils.jsonToFile(jperms, perm_file)
#user dir in DONOR_DIR
os.mkdir("%s/%s" % (GlobalConfig.DONOR_DIR, user_name))
if os.path.exists(project_dir) or os.path.exists(src_table_dir):
print "project_dir", project_dir
#TODO:
#name comflicts between users?
status, message = "bad", "The project name '%s' is already taken" % project_name
print status, message
else:
os.mkdir(project_dir)
os.mkdir("%s/%s" % (project_dir, GlobalConfig.SYMLNK_GENOMES))
#setup directory for uploaded tables
os.mkdir(src_table_dir)
#TODO
#add the new project:assembly mapping to file
pamfile = "../lib/project_assembly_mapping.json"
jsn = utils.fileToJson(pamfile)
jsn[project_name] = assembly
utils.jsonToFile(jsn, pamfile)
print "altered pamfile"
#fmap = open...
#lines = fmap.readlines()
#lines[-1] = "%s : %s" % (project_name,assembly)
#lines.append('}')
#fmap.close()
#add permissions
perm_file = "../lib/permissions.json"
jperms = utils.fileToJson(perm_file)
jperms[user_name][project_name] = True
utils.jsonToFile(jperms, perm_file)
fields = cgi.FieldStorage()
user_name = fields.getvalue("user_name")
passwd = fields.getvalue("passwd")
is_registering = fields.getvalue("is_registering")
utils.printToServer( 'Content-type: text/json\n\n' )
status, message = "ok", "ok"
print fields
if is_registering == 'true' :
#add permissions
passwd_file = "../lib/passwds.json"
perm_file = "../lib/permissions.json"
jperms = utils.fileToJson( perm_file )
jpasswds = utils.fileToJson( passwd_file )
if user_name in jpasswds :
status,message = "bad","A user by the name '%s' already exists" % user_name
else :
m = hashlib.md5()
m.update(passwd)
jpasswds[user_name] = m.hexdigest()
utils.jsonToFile( jpasswds, passwd_file )
jperms[user_name] = {}
utils.jsonToFile( jperms, perm_file )
#user dir in DONOR_DIR
os.mkdir( "%s/%s" % (GlobalConfig.DONOR_DIR, user_name) )
if os.path.exists( project_dir ) or os.path.exists( src_table_dir ) :
print "project_dir", project_dir
#TODO:
#name comflicts between users?
status,message = "bad","The project name '%s' is already taken" % project_name
print status,message
else :
os.mkdir( project_dir )
os.mkdir( "%s/%s" % (project_dir, GlobalConfig.SYMLNK_GENOMES) )
#setup directory for uploaded tables
os.mkdir( src_table_dir )
#TODO
#add the new project:assembly mapping to file
pamfile = "../lib/project_assembly_mapping.json"
jsn = utils.fileToJson(pamfile)
jsn[project_name] = assembly
utils.jsonToFile(jsn,pamfile)
print "altered pamfile"
#fmap = open...
#lines = fmap.readlines()
#lines[-1] = "%s : %s" % (project_name,assembly)
#lines.append('}')
#fmap.close()
#add permissions
perm_file = "../lib/permissions.json"
jperms = utils.fileToJson( perm_file )
jperms[user_name][project_name] = True
utils.jsonToFile( jperms, perm_file )
#!/usr/bin/python
import sys
sys.path.append("../lib")
import os
import simplejson as json
import re
import cgi
import cgitb
import utils
cgitb.enable()
from GlobalConfig import QUERY_PREFIX, PRIVATE_PREFIX, CHROM_PREFIX, DONOR_PREFIX, ROOT_DIR, DEBUG_DIR, TRACK_TEMPLATE, UNBOUND_CHROM, PROJECT_PREFIX
perms = utils.fileToJson( "../lib/permissions.json" )
dassembly = utils.fileToJson( "../lib/project_assembly_mapping.json" )
def getChildren( user_name, path ) :
r = []
for thing in os.listdir( path ) :
if show( user_name, path, thing) :
r.append( thing )
r.sort()
return r
#needed by spec, see[]
def handleQuery( user_name, path ) :
print "handleQuery,", path
total = 0
items = []
#Argparsing first in case we end up terminating early.
import argparse
from utils import fileToJson
data = fileToJson('./config.json')
data['private'] = fileToJson('./private.json')
data['packageInfo'] = fileToJson('./packageInfo.json')
CLIArguments = None
parser = argparse.ArgumentParser(description = "A Python Discord bot with a powerful and modular architecture.") #CLI Argument parsing
parser.add_argument('--verbose', '-v', dest = 'verbosity', action = 'count', default = 0, help = "Prints more content when running the program, -vvv is more verbose than -v.")
parser.add_argument('--version', '-ver', action = 'version', version = data['packageInfo']['VERSION'], help = "Prints more content when running the program, -vvv is more verbose than -v.")
parser.add_argument('--overrideDiagnostics', '-d', dest = 'overrideDiagnostics', action = 'store_true', default = False, help = "Sends all logged messages to diagnostics.")
parser.add_argument('--discordWarnings', '-w', dest = 'discordWarnings', action = 'store_true', help = "Starts logging warnings from Discord's logging feature.")
parser.add_argument('--reloadOnError', '-R', dest = 'reloadOnError', action = 'store_true', help = "Reloads commands, events, & more on most errors.")
parser.add_argument('--resetSafelock', '-s', dest = 'resetSafeLock', action = 'store_true', help = "Resets a safelock if it was in place.")
parser.add_argument('--livingCode', '-l', dest = 'livingCode', action = 'store_true', help = "Alllows the livingCode to be enabled. Still needs to be unlocked before the safelock duration to be used the full session.")
parser.add_argument('--livingCodeSession', dest = 'livingCodeSession', action = 'store_true', help = "Turns off the unlock duration, so the bot won't automatically safelock. Only use if you know what you're doing.")
CLIArguments = parser.parse_args()
import numpy
import asyncio
import importlib
import os
import re
import subprocess
import sys
import warnings
import inspect
import math
#!/usr/bin/python
import sys
sys.path.append("../lib")
import os
import simplejson as json
import re
import cgi
import cgitb
import utils
cgitb.enable()
from GlobalConfig import QUERY_PREFIX, PRIVATE_PREFIX, CHROM_PREFIX, DONOR_PREFIX, ROOT_DIR, DEBUG_DIR, TRACK_TEMPLATE, UNBOUND_CHROM, PROJECT_PREFIX
perms = utils.fileToJson("../lib/permissions.json")
dassembly = utils.fileToJson("../lib/project_assembly_mapping.json")
def getChildren(user_name, path):
r = []
for thing in os.listdir(path):
if show(user_name, path, thing):
r.append(thing)
r.sort()
return r
#needed by spec, see[]
def handleQuery(user_name, path):
print "handleQuery,", path
total = 0
items = []
import json
import numpy
import os
import asyncio
import pymongo
import discord
import utils
DBData = utils.fileToJson("./private.json")
dbClient = pymongo.MongoClient(DBData['database']['location'],
DBData['database']['port'])
db = dbClient[DBData['database']['name']]
discordObjects = db['discordObjects']
def setObject(data):
return discordObjects.insert_one(data)
def getObject(attribute, value, forceOverride=False):
return discordObjects.find_one({attribute: value})
def getObjectByID(ID, forceOverride=False):
return getObject('_id', ID, forceOverride)
def getFromJson( self, config ):
return utils.fileToJson( config )
