# -*- coding: utf-8 -*- ######################################################################### ## This scaffolding model makes your app work on Google App Engine too ## File is released under public domain and you can use without limitations ######################################################################### ## if SSL/HTTPS is properly configured and you want all HTTP requests to ## be redirected to HTTPS, uncomment the line below: request.requires_https() if not request.env.web2py_runtime_gae: ## if NOT running on Google App Engine use SQLite or other DB db = DAL('sqlite://storage.sqlite',pool_size=1,check_reserved=['all']) else: ## connect to Google BigTable (optional 'google:datastore://namespace') db = DAL('google:datastore') ## store sessions and tickets there session.connect(request, response, db=db) ## or store session in Memcache, Redis, etc. ## from gluon.contrib.memdb import MEMDB ## from google.appengine.api.memcache import Client ## session.connect(request, response, db = MEMDB(Client())) ## by default give a view/generic.extension to all actions from localhost ## none otherwise. a pattern can be 'controller/function.extension' response.generic_patterns = ['*'] if request.is_local else [] ## (optional) optimize handling of static files # response.optimize_css = 'concat,minify,inline' # response.optimize_js = 'concat,minify,inline' ######################################################################### ## Here is sample code if you need for ## - email capabilities ## - authentication (registration, login, logout, ... ) ## - authorization (role based authorization) ## - services (xml, csv, json, xmlrpc, jsonrpc, amf, rss) ## - old style crud actions ## (more options discussed in gluon/tools.py) ######################################################################### from gluon.tools import Auth, Crud, Service, PluginManager, prettydate auth = Auth(db) crud, service, plugins = Crud(db), Service(), PluginManager() ## create all tables needed by auth if not custom tables auth.define_tables(username=False, signature=False) ## configure email mail = auth.settings.mailer mail.settings.server = 'logging' or 'smtp.gmail.com:587' mail.settings.sender = 'you@gmail.com' mail.settings.login = 'username:password' ## configure auth policy auth.settings.registration_requires_verification = False auth.settings.registration_requires_approval = False auth.settings.reset_password_requires_verification = True ## if you need to use OpenID, Facebook, MySpace, Twitter, Linkedin, etc. ## register with janrain.com, write your domain:api_key in private/janrain.key from gluon.contrib.login_methods.rpx_account import use_janrain use_janrain(auth, filename='private/janrain.key') ######################################################################### ## Define your tables below for example ## ## >>> db.define_table('mytable',Field('myfield','string')) ## ## Fields can be 'string','text','password','integer','double','boolean' ## 'date','time','datetime','blob','upload', 'reference TABLENAME' ## There is an implicit 'id integer autoincrement' field ## Consult manual for more options, validators, etc. ## ## More API examples for controllers: ## ## >>> db.mytable.insert(myfield='value') ## >>> rows=db(db.mytable.myfield=='value').select(db.mytable.ALL) ## >>> for row in rows: print row.id, row.myfield ######################################################################### db.define_table('patient', Field('first_name','string'), Field('last_name','string'), Field('birth','date'), Field('info','text')) ''' db.patient.first_name.requires = IS_NOT_EMPTY( error_message='input needed' ) db.patient.last_name.requires = IS_NOT_EMPTY( error_message='input needed' ) db.patient.birth.requires = IS_DATE(format=T('%Y-%m-%d'), error_message='must be YYYY-MM-DD!') ''' db.define_table('sequence_file', Field('patient_id', 'reference patient'), Field('sampling_date','date'), Field('info','text'), Field('filename','text'), Field('pcr','text'), Field('sequencer','text'), Field('producer','text'), Field('size_file','integer'), Field('data_file', 'upload', length=1000000000000, autodelete=True)) db.define_table('standard_file', Field('name', 'string'), Field('info','text'), Field('data_file', 'upload',autodelete=True, length=1000000000000)) db.define_table('config', Field('name', 'string'), Field('command', 'string'), Field('info','text'), Field('germline', 'string')) db.define_table('data_file', Field('sequence_file_id', 'reference sequence_file'), Field('config_id', 'reference config'), Field('run_date','date'), Field('scheduler_task_id', 'integer'), Field('data_file', 'upload', length=1000000000000, autodelete=True)) db.define_table('fused_file', Field('patient_id', 'reference patient'), Field('config_id', 'reference config'), Field('fuse_date','date'), Field('status', 'string'), Field('fused_file', 'upload', length=1000000000000, autodelete=True)) db.define_table('analysis_file', Field('patient_id', 'reference patient'), Field('config_id', 'reference config'), Field('analyze_date','date'), Field('status', 'string'), Field('analysis_file', 'upload', length=1000000000000, autodelete=True)) if db(db.auth_user.id > 0).count() == 0: id_first_user="" ## création du premier user id_first_user=db.auth_user.insert( password = db.auth_user.password.validate('1234')[0], email = 'plop@plop.com', first_name = 'System', last_name = 'Administrator' ) ## création des groupes de base id_admin_group=db.auth_group.insert(role='admin') id_sa_group=db.auth_group.insert(role='user_1') db.auth_group.insert(role="public") db.auth_membership.insert(user_id=id_first_user, group_id=id_admin_group) db.auth_membership.insert(user_id=id_first_user, group_id=id_sa_group) ##création des configs de base id_config_TRG = db.config.insert( name = 'TRG', command = '-c clones -z 20 -R 1 -r 100 ', info = 'default trg config', germline = 'TRG' ) id_config_IGH = db.config.insert( name = 'IGH', command = '-c clones -z 20 -R 1 -r 100 ', info = 'default igh config', germline = 'IGH' ) ## permission ## system admin have admin/read/create rights on all patients, groups and configs auth.add_permission(id_admin_group, 'admin', db.patient, 0) auth.add_permission(id_admin_group, 'admin', db.auth_group, 0) auth.add_permission(id_admin_group, 'admin', db.config, 0) auth.add_permission(id_admin_group, 'read', db.patient, 0) auth.add_permission(id_admin_group, 'read', db.auth_group, 0) auth.add_permission(id_admin_group, 'read', db.config, 0) auth.add_permission(id_admin_group, 'create', db.patient, 0) auth.add_permission(id_admin_group, 'create', db.auth_group, 0) auth.add_permission(id_admin_group, 'create', db.config, 0) ## after defining tables, uncomment below to enable auditing auth.enable_record_versioning(db)