author | Sylvain Thénault <sylvain.thenault@logilab.fr> |
Tue, 16 Feb 2010 09:23:35 +0100 | |
changeset 4591 | 47acae3cb778 |
parent 4527 | 67ab70e98488 |
child 4613 | 141a4f613f8a |
permissions | -rw-r--r-- |
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# -*- coding: utf-8 -*- |
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"""This module provides tools to import tabular data. |
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:organization: Logilab |
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update copyright: welcome 2010
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:copyright: 2001-2010 LOGILAB S.A. (Paris, FRANCE), license is LGPL v2. |
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:contact: http://www.logilab.fr/ -- mailto:contact@logilab.fr |
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:license: GNU Lesser General Public License, v2.1 - http://www.gnu.org/licenses |
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Example of use (run this with `cubicweb-ctl shell instance import-script.py`): |
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.. sourcecode:: python |
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|
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from cubicweb.devtools.dataimport import * |
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# define data generators |
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GENERATORS = [] |
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USERS = [('Prenom', 'firstname', ()), |
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('Nom', 'surname', ()), |
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('Identifiant', 'login', ()), |
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] |
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def gen_users(ctl): |
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for row in ctl.get_data('utilisateurs'): |
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entity = mk_entity(row, USERS) |
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entity['upassword'] = u'motdepasse' |
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ctl.check('login', entity['login'], None) |
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ctl.store.add('CWUser', entity) |
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email = {'address': row['email']} |
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ctl.store.add('EmailAddress', email) |
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ctl.store.relate(entity['eid'], 'use_email', email['eid']) |
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ctl.store.rql('SET U in_group G WHERE G name "users", U eid %(x)s', {'x':entity['eid']}) |
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CHK = [('login', check_doubles, 'Utilisateurs Login', |
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'Deux utilisateurs ne devraient pas avoir le même login.'), |
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] |
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GENERATORS.append( (gen_users, CHK) ) |
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# create controller |
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ctl = CWImportController(RQLObjectStore()) |
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ctl.askerror = 1 |
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ctl.generators = GENERATORS |
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ctl.store._checkpoint = checkpoint |
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ctl.store._rql = rql |
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ctl.data['utilisateurs'] = lazytable(utf8csvreader(open('users.csv'))) |
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# run |
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ctl.run() |
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sys.exit(0) |
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.. BUG fichier à une colonne pose un problème de parsing |
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.. TODO rollback() |
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""" |
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__docformat__ = "restructuredtext en" |
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import sys |
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import csv |
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import traceback |
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import os.path as osp |
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from StringIO import StringIO |
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from logilab.common import shellutils |
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from logilab.common.deprecation import deprecated |
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def ucsvreader_pb(filepath, encoding='utf-8', separator=',', quote='"', |
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skipfirst=False, withpb=True): |
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"""same as ucsvreader but a progress bar is displayed as we iter on rows""" |
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if not osp.exists(filepath): |
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raise Exception("file doesn't exists: %s" % filepath) |
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rowcount = int(shellutils.Execute('wc -l "%s"' % filepath).out.strip().split()[0]) |
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if skipfirst: |
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rowcount -= 1 |
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if withpb: |
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pb = shellutils.ProgressBar(rowcount, 50) |
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for urow in ucsvreader(file(filepath), encoding, separator, quote, skipfirst): |
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yield urow |
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if withpb: |
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pb.update() |
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print ' %s rows imported' % rowcount |
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def ucsvreader(stream, encoding='utf-8', separator=',', quote='"', |
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skipfirst=False): |
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"""A csv reader that accepts files with any encoding and outputs unicode |
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strings |
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""" |
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it = iter(csv.reader(stream, delimiter=separator, quotechar=quote)) |
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if skipfirst: |
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it.next() |
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for row in it: |
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yield [item.decode(encoding) for item in row] |
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utf8csvreader = deprecated('use ucsvreader instead')(ucsvreader) |
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def commit_every(nbit, store, it): |
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for i, x in enumerate(it): |
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yield x |
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if nbit is not None and i % nbit: |
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store.checkpoint() |
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if nbit is not None: |
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store.checkpoint() |
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def lazytable(reader): |
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"""The first row is taken to be the header of the table and |
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used to output a dict for each row of data. |
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>>> data = lazytable(utf8csvreader(open(filename))) |
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""" |
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header = reader.next() |
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for row in reader: |
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yield dict(zip(header, row)) |
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113 |
def mk_entity(row, map): |
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"""Return a dict made from sanitized mapped values. |
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115 |
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ValidationError can be raised on unexpected values found in checkers |
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117 |
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118 |
>>> row = {'myname': u'dupont'} |
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>>> map = [('myname', u'name', (capitalize_if_unicase,))] |
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120 |
>>> mk_entity(row, map) |
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{'name': u'Dupont'} |
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>>> row = {'myname': u'dupont', 'optname': u''} |
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>>> map = [('myname', u'name', (capitalize_if_unicase,)), |
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... ('optname', u'MARKER', (optional,))] |
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125 |
>>> mk_entity(row, map) |
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126 |
{'name': u'Dupont'} |
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127 |
""" |
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128 |
res = {} |
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assert isinstance(row, dict) |
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assert isinstance(map, list) |
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for src, dest, funcs in map: |
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assert not (required in funcs and optional in funcs), "optional and required checks are exclusive" |
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res[dest] = row[src] |
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134 |
try: |
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135 |
for func in funcs: |
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136 |
res[dest] = func(res[dest]) |
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137 |
if res[dest] is None or res[dest]==False: |
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138 |
raise AssertionError('undetermined value') |
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139 |
except AssertionError, err: |
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if optional in funcs: |
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141 |
# Forget this field if exception is coming from optional function |
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142 |
del res[dest] |
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143 |
else: |
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144 |
raise AssertionError('error with "%s" field: %s' % (src, err)) |
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145 |
return res |
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146 |
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147 |
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148 |
# user interactions ############################################################ |
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149 |
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def tell(msg): |
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151 |
print msg |
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152 |
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153 |
def confirm(question): |
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154 |
"""A confirm function that asks for yes/no/abort and exits on abort.""" |
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155 |
answer = shellutils.ASK.ask(question, ('Y','n','abort'), 'Y') |
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156 |
if answer == 'abort': |
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157 |
sys.exit(1) |
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158 |
return answer == 'Y' |
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159 |
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160 |
|
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161 |
class catch_error(object): |
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162 |
"""Helper for @contextmanager decorator.""" |
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163 |
|
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164 |
def __init__(self, ctl, key='unexpected error', msg=None): |
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165 |
self.ctl = ctl |
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166 |
self.key = key |
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167 |
self.msg = msg |
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168 |
|
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169 |
def __enter__(self): |
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170 |
return self |
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171 |
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172 |
def __exit__(self, type, value, traceback): |
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173 |
if type is not None: |
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174 |
if issubclass(type, (KeyboardInterrupt, SystemExit)): |
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175 |
return # re-raise |
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176 |
if self.ctl.catcherrors: |
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177 |
self.ctl.record_error(self.key, None, type, value, traceback) |
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178 |
return True # silent |
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179 |
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180 |
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181 |
# base sanitizing functions #################################################### |
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182 |
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183 |
def capitalize_if_unicase(txt): |
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if txt.isupper() or txt.islower(): |
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return txt.capitalize() |
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186 |
return txt |
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187 |
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188 |
def uppercase(txt): |
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189 |
return txt.upper() |
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190 |
|
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191 |
def lowercase(txt): |
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192 |
return txt.lower() |
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193 |
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def no_space(txt): |
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return txt.replace(' ','') |
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def no_uspace(txt): |
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return txt.replace(u'\xa0','') |
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199 |
|
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def no_dash(txt): |
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return txt.replace('-','') |
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def decimal(value): |
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"""cast to float but with comma replacement |
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206 |
We take care of some locale format as replacing ',' by '.'""" |
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value = value.replace(',', '.') |
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try: |
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return float(value) |
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except Exception, err: |
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raise AssertionError(err) |
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def integer(value): |
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try: |
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return int(value) |
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except Exception, err: |
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raise AssertionError(err) |
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def strip(txt): |
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return txt.strip() |
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def yesno(value): |
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return value.lower()[0] in 'yo1' |
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def isalpha(value): |
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if value.isalpha(): |
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return value |
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raise AssertionError("not all characters in the string alphabetic") |
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def optional(value): |
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"""validation error will not been raised if you add this checker in chain""" |
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return value |
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def required(value): |
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"""raise AssertionError is value is empty |
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This check should be often found in last position in the chain. |
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""" |
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if bool(value): |
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return value |
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raise AssertionError("required") |
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@deprecated('use required(value)') |
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def nonempty(value): |
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return required(value) |
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@deprecated('use integer(value)') |
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def alldigits(txt): |
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if txt.isdigit(): |
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return txt |
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else: |
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return u'' |
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# base integrity checking functions ############################################ |
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def check_doubles(buckets): |
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"""Extract the keys that have more than one item in their bucket.""" |
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return [(key, len(value)) for key,value in buckets.items() if len(value) > 1] |
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def check_doubles_not_none(buckets): |
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"""Extract the keys that have more than one item in their bucket.""" |
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return [(key, len(value)) for key,value in buckets.items() if key is not None and len(value) > 1] |
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# object stores ################################################################# |
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|
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class ObjectStore(object): |
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"""Store objects in memory for *faster* validation (development mode) |
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But it will not enforce the constraints of the schema and hence will miss some problems |
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|
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>>> store = ObjectStore() |
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>>> user = {'login': 'johndoe'} |
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>>> store.add('CWUser', user) |
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>>> group = {'name': 'unknown'} |
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>>> store.add('CWUser', group) |
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>>> store.relate(user['eid'], 'in_group', group['eid']) |
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""" |
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def __init__(self): |
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self.items = [] |
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self.eids = {} |
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self.types = {} |
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self.relations = set() |
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self.indexes = {} |
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self._rql = None |
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self._checkpoint = None |
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|
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def _put(self, type, item): |
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self.items.append(item) |
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return len(self.items) - 1 |
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def add(self, type, item): |
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assert isinstance(item, dict), 'item is not a dict but a %s' % type(item) |
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eid = item['eid'] = self._put(type, item) |
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self.eids[eid] = item |
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self.types.setdefault(type, []).append(eid) |
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|
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def relate(self, eid_from, rtype, eid_to): |
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"""Add new relation (reverse type support is available) |
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301 |
|
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>>> 1,2 = eid_from, eid_to |
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>>> self.relate(eid_from, 'in_group', eid_to) |
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1, 'in_group', 2 |
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>>> self.relate(eid_from, 'reverse_in_group', eid_to) |
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2, 'in_group', 1 |
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""" |
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if rtype.startswith('reverse_'): |
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eid_from, eid_to = eid_to, eid_from |
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rtype = rtype[8:] |
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relation = eid_from, rtype, eid_to |
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self.relations.add(relation) |
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return relation |
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314 |
|
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315 |
def build_index(self, name, type, func=None): |
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index = {} |
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317 |
if func is None or not callable(func): |
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318 |
func = lambda x: x['eid'] |
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319 |
for eid in self.types[type]: |
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320 |
index.setdefault(func(self.eids[eid]), []).append(eid) |
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321 |
assert index, "new index '%s' cannot be empty" % name |
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322 |
self.indexes[name] = index |
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323 |
|
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324 |
def build_rqlindex(self, name, type, key, rql, rql_params=False, func=None): |
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325 |
"""build an index by rql query |
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326 |
|
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327 |
rql should return eid in first column |
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328 |
ctl.store.build_index('index_name', 'users', 'login', 'Any U WHERE U is CWUser') |
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329 |
""" |
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330 |
rset = self.rql(rql, rql_params or {}) |
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331 |
for entity in rset.entities(): |
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332 |
getattr(entity, key) # autopopulate entity with key attribute |
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|
333 |
self.eids[entity.eid] = dict(entity) |
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|
334 |
if entity.eid not in self.types.setdefault(type, []): |
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335 |
self.types[type].append(entity.eid) |
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336 |
assert self.types[type], "new index type '%s' cannot be empty (0 record found)" % type |
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|
337 |
|
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338 |
# Build index with specified key |
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339 |
func = lambda x: x[key] |
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340 |
self.build_index(name, type, func) |
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341 |
|
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|
342 |
@deprecated('get_many() deprecated. Use fetch() instead') |
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343 |
def get_many(self, name, key): |
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344 |
return self.fetch(name, key, unique=False) |
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345 |
|
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|
346 |
@deprecated('get_one() deprecated. Use fetch(..., unique=True) instead') |
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347 |
def get_one(self, name, key): |
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348 |
return self.fetch(name, key, unique=True) |
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349 |
|
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|
350 |
def fetch(self, name, key, unique=False, decorator=None): |
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351 |
""" |
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352 |
decorator is a callable method or an iterator of callable methods (usually a lambda function) |
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353 |
decorator=lambda x: x[:1] (first value is returned) |
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|
354 |
|
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355 |
We can use validation check function available in _entity |
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|
356 |
""" |
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357 |
eids = self.indexes[name].get(key, []) |
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358 |
if decorator is not None: |
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359 |
if not hasattr(decorator, '__iter__'): |
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|
360 |
decorator = (decorator,) |
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361 |
for f in decorator: |
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362 |
eids = f(eids) |
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|
363 |
if unique: |
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364 |
assert len(eids) == 1, u'expected a single one value for key "%s" in index "%s". Got %i' % (key, name, len(eids)) |
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365 |
eids = eids[0] # FIXME maybe it's better to keep an iterator here ? |
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366 |
return eids |
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|
367 |
|
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368 |
def find(self, type, key, value): |
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for idx in self.types[type]: |
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370 |
item = self.items[idx] |
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|
371 |
if item[key] == value: |
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372 |
yield item |
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373 |
|
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374 |
def rql(self, *args): |
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375 |
if self._rql is not None: |
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376 |
return self._rql(*args) |
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|
377 |
|
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|
378 |
def checkpoint(self): |
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379 |
pass |
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|
380 |
|
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|
381 |
|
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|
382 |
class RQLObjectStore(ObjectStore): |
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383 |
"""ObjectStore that works with an actual RQL repository (production mode)""" |
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384 |
_rql = None # bw compat |
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|
385 |
|
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386 |
def __init__(self, session=None, checkpoint=None): |
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387 |
ObjectStore.__init__(self) |
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|
388 |
if session is not None: |
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389 |
if not hasattr(session, 'set_pool'): |
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|
390 |
# connection |
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391 |
cnx = session |
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|
392 |
session = session.request() |
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393 |
session.set_pool = lambda : None |
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394 |
checkpoint = checkpoint or cnx.commit |
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|
395 |
self.session = session |
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396 |
self.checkpoint = checkpoint or session.commit |
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|
397 |
elif checkpoint is not None: |
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|
398 |
self.checkpoint = checkpoint |
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|
399 |
|
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400 |
def rql(self, *args): |
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401 |
if self._rql is not None: |
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402 |
return self._rql(*args) |
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|
403 |
self.session.set_pool() |
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|
404 |
return self.session.execute(*args) |
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|
405 |
|
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|
406 |
def create_entity(self, *args, **kwargs): |
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407 |
self.session.set_pool() |
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408 |
entity = self.session.create_entity(*args, **kwargs) |
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409 |
self.eids[entity.eid] = entity |
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|
410 |
self.types.setdefault(args[0], []).append(entity.eid) |
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|
411 |
return entity |
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|
412 |
|
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|
413 |
def _put(self, type, item): |
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|
414 |
query = ('INSERT %s X: ' % type) + ', '.join(['X %s %%(%s)s' % (key,key) for key in item]) |
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|
415 |
return self.rql(query, item)[0][0] |
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416 |
|
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|
417 |
def relate(self, eid_from, rtype, eid_to): |
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418 |
# if reverse relation is found, eids are exchanged |
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419 |
eid_from, rtype, eid_to = super(RQLObjectStore, self).relate(eid_from, rtype, eid_to) |
4136
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420 |
self.rql('SET X %s Y WHERE X eid %%(x)s, Y eid %%(y)s' % rtype, |
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|
421 |
{'x': int(eid_from), 'y': int(eid_to)}, ('x', 'y')) |
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|
422 |
|
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|
423 |
|
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|
424 |
# the import controller ######################################################## |
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changeset
|
425 |
|
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|
426 |
class CWImportController(object): |
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|
427 |
"""Controller of the data import process. |
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|
428 |
|
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|
429 |
>>> ctl = CWImportController(store) |
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|
430 |
>>> ctl.generators = list_of_data_generators |
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|
431 |
>>> ctl.data = dict_of_data_tables |
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|
432 |
>>> ctl.run() |
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|
433 |
""" |
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changeset
|
434 |
|
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|
435 |
def __init__(self, store, askerror=0, catcherrors=None, tell=tell, |
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|
436 |
commitevery=50): |
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|
437 |
self.store = store |
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|
438 |
self.generators = None |
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|
439 |
self.data = {} |
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|
440 |
self.errors = None |
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|
441 |
self.askerror = askerror |
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|
442 |
if catcherrors is None: |
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|
443 |
catcherrors = askerror |
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|
444 |
self.catcherrors = catcherrors |
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|
445 |
self.commitevery = commitevery # set to None to do a single commit |
3029
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diff
changeset
|
446 |
self._tell = tell |
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changeset
|
447 |
|
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|
448 |
def check(self, type, key, value): |
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|
449 |
self._checks.setdefault(type, {}).setdefault(key, []).append(value) |
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changeset
|
450 |
|
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|
451 |
def check_map(self, entity, key, map, default): |
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changeset
|
452 |
try: |
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|
453 |
entity[key] = map[entity[key]] |
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|
454 |
except KeyError: |
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|
455 |
self.check(key, entity[key], None) |
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changeset
|
456 |
entity[key] = default |
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changeset
|
457 |
|
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|
458 |
def record_error(self, key, msg=None, type=None, value=None, tb=None): |
4186
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import cleanup, check data file exists
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diff
changeset
|
459 |
tmp = StringIO() |
4152
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|
460 |
if type is None: |
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|
461 |
traceback.print_exc(file=tmp) |
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changeset
|
462 |
else: |
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|
463 |
traceback.print_exception(type, value, tb, file=tmp) |
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changeset
|
464 |
print tmp.getvalue() |
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changeset
|
465 |
# use a list to avoid counting a <nb lines> errors instead of one |
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|
466 |
errorlog = self.errors.setdefault(key, []) |
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changeset
|
467 |
if msg is None: |
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changeset
|
468 |
errorlog.append(tmp.getvalue().splitlines()) |
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new catch_error context manager, nicer controller __init__ and new iter_and_commit(datakey) method
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changeset
|
469 |
else: |
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changeset
|
470 |
errorlog.append( (msg, tmp.getvalue().splitlines()) ) |
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changeset
|
471 |
|
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|
472 |
def run(self): |
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changeset
|
473 |
self.errors = {} |
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|
474 |
for func, checks in self.generators: |
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|
475 |
self._checks = {} |
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|
476 |
func_name = func.__name__[4:] # XXX |
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|
477 |
self.tell("Import '%s'..." % func_name) |
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|
478 |
try: |
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changeset
|
479 |
func(self) |
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changeset
|
480 |
except: |
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changeset
|
481 |
if self.catcherrors: |
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|
482 |
self.record_error(func_name, 'While calling %s' % func.__name__) |
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changeset
|
483 |
else: |
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changeset
|
484 |
raise |
2974
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changeset
|
485 |
for key, func, title, help in checks: |
3dfe497e5afa
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diff
changeset
|
486 |
buckets = self._checks.get(key) |
3dfe497e5afa
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parents:
diff
changeset
|
487 |
if buckets: |
3dfe497e5afa
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diff
changeset
|
488 |
err = func(buckets) |
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parents:
diff
changeset
|
489 |
if err: |
3dfe497e5afa
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diff
changeset
|
490 |
self.errors[title] = (help, err) |
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changeset
|
491 |
self.store.checkpoint() |
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|
492 |
nberrors = sum(len(err[1]) for err in self.errors.values()) |
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changeset
|
493 |
self.tell('\nImport completed: %i entities, %i types, %i relations and %i errors' |
3003
2944ee420dca
R [dataimport] rename uid to eid
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2974
diff
changeset
|
494 |
% (len(self.store.eids), len(self.store.types), |
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changeset
|
495 |
len(self.store.relations), nberrors)) |
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|
496 |
if self.errors: |
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changeset
|
497 |
if self.askerror==2 or (self.askerror and confirm('Display errors ?')): |
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changeset
|
498 |
from pprint import pformat |
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|
499 |
for errkey, error in self.errors.items(): |
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|
500 |
self.tell("\n%s (%s): %d\n" % (error[0], errkey, len(error[1]))) |
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changeset
|
501 |
self.tell(pformat(sorted(error[1]))) |
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changeset
|
502 |
|
3dfe497e5afa
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diff
changeset
|
503 |
def get_data(self, key): |
3dfe497e5afa
F tools to import data
Nicolas Chauvat <nicolas.chauvat@logilab.fr>
parents:
diff
changeset
|
504 |
return self.data.get(key) |
3dfe497e5afa
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diff
changeset
|
505 |
|
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changeset
|
506 |
def index(self, name, key, value, unique=False): |
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[R] devtools: improve default data import mechanism
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changeset
|
507 |
"""create a new index |
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changeset
|
508 |
|
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[R] devtools: improve default data import mechanism
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diff
changeset
|
509 |
If unique is set to True, only first occurence will be kept not the following ones |
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[R] devtools: improve default data import mechanism
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changeset
|
510 |
""" |
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changeset
|
511 |
if unique: |
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changeset
|
512 |
try: |
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changeset
|
513 |
if value in self.store.indexes[name][key]: |
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changeset
|
514 |
return |
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changeset
|
515 |
except KeyError: |
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[R] devtools: improve default data import mechanism
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changeset
|
516 |
# we're sure that one is the first occurence; so continue... |
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changeset
|
517 |
pass |
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diff
changeset
|
518 |
self.store.indexes.setdefault(name, {}).setdefault(key, []).append(value) |
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Nicolas Chauvat <nicolas.chauvat@logilab.fr>
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diff
changeset
|
519 |
|
3dfe497e5afa
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diff
changeset
|
520 |
def tell(self, msg): |
3dfe497e5afa
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Nicolas Chauvat <nicolas.chauvat@logilab.fr>
parents:
diff
changeset
|
521 |
self._tell(msg) |
3dfe497e5afa
F tools to import data
Nicolas Chauvat <nicolas.chauvat@logilab.fr>
parents:
diff
changeset
|
522 |
|
4152
30fd1229137d
new catch_error context manager, nicer controller __init__ and new iter_and_commit(datakey) method
Sylvain Thénault <sylvain.thenault@logilab.fr>
parents:
4140
diff
changeset
|
523 |
def iter_and_commit(self, datakey): |
30fd1229137d
new catch_error context manager, nicer controller __init__ and new iter_and_commit(datakey) method
Sylvain Thénault <sylvain.thenault@logilab.fr>
parents:
4140
diff
changeset
|
524 |
"""iter rows, triggering commit every self.commitevery iterations""" |
30fd1229137d
new catch_error context manager, nicer controller __init__ and new iter_and_commit(datakey) method
Sylvain Thénault <sylvain.thenault@logilab.fr>
parents:
4140
diff
changeset
|
525 |
return commit_every(self.commitevery, self.store, self.get_data(datakey)) |