Mercurial > repos > yufei-luo > s_mart
view commons/core/sql/test/Test_TableMatchAdaptator.py @ 16:6135c3075bc5
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author | m-zytnicki |
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date | Mon, 22 Apr 2013 11:09:41 -0400 |
parents | 769e306b7933 |
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# Copyright INRA (Institut National de la Recherche Agronomique) # http://www.inra.fr # http://urgi.versailles.inra.fr # # This software is governed by the CeCILL license under French law and # abiding by the rules of distribution of free software. You can use, # modify and/ or redistribute the software under the terms of the CeCILL # license as circulated by CEA, CNRS and INRIA at the following URL # "http://www.cecill.info". # # As a counterpart to the access to the source code and rights to copy, # modify and redistribute granted by the license, users are provided only # with a limited warranty and the software's author, the holder of the # economic rights, and the successive licensors have only limited # liability. # # In this respect, the user's attention is drawn to the risks associated # with loading, using, modifying and/or developing or reproducing the # software by the user in light of its specific status of free software, # that may mean that it is complicated to manipulate, and that also # therefore means that it is reserved for developers and experienced # professionals having in-depth computer knowledge. Users are therefore # encouraged to load and test the software's suitability as regards their # requirements in conditions enabling the security of their systems and/or # data to be ensured and, more generally, to use and operate it in the # same conditions as regards security. # # The fact that you are presently reading this means that you have had # knowledge of the CeCILL license and that you accept its terms. import unittest import time import os from commons.core.sql.DbMySql import DbMySql from commons.core.coord.Match import Match from commons.core.sql.TableMatchAdaptator import TableMatchAdaptator class Test_TableMatchAdaptator( unittest.TestCase ): def setUp( self ): self._uniqId = "%s_%s" % (time.strftime("%Y%m%d%H%M%S") , os.getpid()) self._configFileName = "dummyConfigFile_%s" % self._uniqId self._iDb = DbMySql() self._table = "dummyMatchTable_%s" % self._uniqId self._tMatchA = TableMatchAdaptator( self._iDb, self._table ) def tearDown( self ): self._uniqId = None self._iDb.dropTable( self._table ) self._iDb.close() self._table = None self._tMatchA = None ################################################################################## ################## Tests for methods in ITableMatchAdaptator ##################### ################################################################################## def test_insert(self): match = Match() tuple = ("QName1", 1, 5, 5, 0.1, 0.2, "SName1", 5, 25, 20, 0.15, 1e-20, 15, 87.2, 1) match.setFromTuple(tuple) self._iDb.createTable( self._table, "match", "" ) self._tMatchA.insert( match, False ) expTMatchTuple = (('QName1', 1L, 5L, 5L, 0.1, 0.2, 'SName1', 5L, 25L, 20L, 0.15, 1e-20, 15L, 87.2, 1L),) sqlCmd = "SELECT * FROM %s" % ( self._table ) self._iDb.execute( sqlCmd ) obsTmatchTuple = self._iDb.cursor.fetchall() self.assertEquals( expTMatchTuple, obsTmatchTuple ) def test_insert_empty_match(self): match = Match() tuple = ("", -1, -1, 5, 0.1, 0.2, "SName1", 5, 25, 20, 0.15, 1e-20, 15, 87.2, 1) match.setFromTuple(tuple) self._iDb.createTable( self._table, "match", "" ) self._tMatchA.insert( match, False ) expTMatchTuple = () sqlCmd = "SELECT * FROM %s" % ( self._table ) self._iDb.execute( sqlCmd ) obsTmatchTuple = self._iDb.cursor.fetchall() self.assertEquals( expTMatchTuple, obsTmatchTuple ) def test_insertList(self): match1 = Match() match2 = Match() tuple1 = ("QName1", 1, 5, 5, 0.1, 0.2, "SName1", 5, 25, 20, 0.15, 1e-20, 15, 87.2, 1) tuple2 = ("QName2", 2, 5, 5, 0.1, 0.2, "SName2", 6, 25, 20, 0.15, 1e-20, 15, 87.2, 2) match1.setFromTuple(tuple1) match2.setFromTuple(tuple2) self._iDb.createTable( self._table, "match", "" ) self._tMatchA.insertList( [ match1, match2 ], False ) expTMatchTuple = (('QName1', 1L, 5L, 5L, 0.1, 0.2, 'SName1', 5L, 25L, 20L, 0.15, 1e-20, 15L, 87.2, 1L),\ ('QName2', 2L, 5L, 5L, 0.1, 0.2, 'SName2', 6L, 25L, 20L, 0.15, 1e-20, 15L, 87.2, 2L)) sqlCmd = "SELECT * FROM %s" % ( self._table ) self._iDb.execute( sqlCmd ) obsTmatchTuple = self._iDb.cursor.fetchall() self.assertEquals( expTMatchTuple, obsTmatchTuple ) def test_getMatchListFromQuery(self): self._iDb.createTable( self._table, "match", "" ) tuple1 = ("QName", 1, 5, 5, 0.1, 0.2, "SName", 5, 25, 20, 0.15, 1e-20, 15, 87.2, 1) tuple2 = ("QName", 1, 6, 6, 0.2, 0.1, "SName", 6, 26, 10, 0.18, 1e-30, 18, 85.2, 2) tuple3 = ("QName", 1, 7, 8, 0.1, 0.2, "SName", 5, 20, 15, 0.20, 1e-25, 20, 89.0, 3) tuple4 = ("QName", 1, 8, 8, 0.1, 0.1, "SName", 5, 15, 10, 0.17, 1e-23, 14, 89.5, 4) match1 = Match() match1.setFromTuple( tuple1 ) match2 = Match() match2.setFromTuple( tuple2 ) match3 = Match() match3.setFromTuple( tuple3 ) match4 = Match() match4.setFromTuple( tuple4 ) expListMatch = [ match1, match2, match3, match4 ] self._tMatchA.insertList(expListMatch) obsListMatch = self._tMatchA.getMatchListFromQuery("QName") self.assertEquals(expListMatch, obsListMatch) def test_getMatchListFromQuery_unexisted_seq_name(self): self._iDb.createTable( self._table, "match", "" ) tuple1 = ("QName", 1, 5, 5, 0.1, 0.2, "SName", 5, 25, 20, 0.15, 1e-20, 15, 87.2, 1) tuple2 = ("QName", 1, 6, 6, 0.2, 0.1, "SName", 6, 26, 10, 0.18, 1e-30, 18, 85.2, 2) tuple3 = ("QName", 1, 7, 8, 0.1, 0.2, "SName", 5, 20, 15, 0.20, 1e-25, 20, 89.0, 3) tuple4 = ("QName", 1, 8, 8, 0.1, 0.1, "SName", 5, 15, 10, 0.17, 1e-23, 14, 89.5, 4) match1 = Match() match1.setFromTuple( tuple1 ) match2 = Match() match2.setFromTuple( tuple2 ) match3 = Match() match3.setFromTuple( tuple3 ) match4 = Match() match4.setFromTuple( tuple4 ) lMatch = [ match1, match2, match3, match4 ] self._tMatchA.insertList(lMatch) expListMatch = [] obsListMatch = self._tMatchA.getMatchListFromQuery("Dummy") self.assertEquals(expListMatch, obsListMatch) def test_getMatchListFromId(self): self._iDb.createTable( self._table, "match", "" ) tuple1 = ("QName", 1, 5, 5, 0.1, 0.2, "SName", 5, 25, 20, 0.15, 1e-20, 15, 87.2, 1) tuple2 = ("QName", 1, 6, 6, 0.2, 0.1, "SName", 6, 26, 10, 0.18, 1e-30, 18, 85.2, 2) tuple3 = ("QName", 1, 7, 8, 0.1, 0.2, "SName", 5, 20, 15, 0.20, 1e-25, 20, 89.0, 3) tuple4 = ("QName", 1, 8, 8, 0.1, 0.1, "SName", 5, 15, 10, 0.17, 1e-23, 14, 89.5, 4) match1 = Match() match1.setFromTuple( tuple1 ) match2 = Match() match2.setFromTuple( tuple2 ) match3 = Match() match3.setFromTuple( tuple3 ) match4 = Match() match4.setFromTuple( tuple4 ) lMatch = [ match1, match2, match3, match4 ] expListMatch = [ match1 ] self._tMatchA.insertList(lMatch) obsListMatch = self._tMatchA.getMatchListFromId(1) self.assertEquals(expListMatch, obsListMatch) def test_getMatchListFromIdList_empty_id_list( self ): self._iDb.createTable( self._table, "match", "" ) tuple1 = ("QName", 1, 5, 5, 0.1, 0.2, "SName", 5, 25, 20, 0.15, 1e-20, 15, 87.2, 1) tuple2 = ("QName", 1, 6, 6, 0.2, 0.1, "SName", 6, 26, 10, 0.18, 1e-30, 18, 85.2, 2) tuple3 = ("QName", 1, 7, 8, 0.1, 0.2, "SName", 5, 20, 15, 0.20, 1e-25, 20, 89.0, 3) tuple4 = ("QName", 1, 8, 8, 0.1, 0.1, "SName", 5, 15, 10, 0.17, 1e-23, 14, 89.5, 4) match1 = Match() match1.setFromTuple( tuple1 ) match2 = Match() match2.setFromTuple( tuple2 ) match3 = Match() match3.setFromTuple( tuple3 ) match4 = Match() match4.setFromTuple( tuple4 ) lMatch = [ match1, match2, match3, match4 ] self._tMatchA.insertList(lMatch) expList = [] obsList = self._tMatchA.getMatchListFromIdList([]) self.assertEquals(expList, obsList) def test_getMatchListFromIdList( self ): self._iDb.createTable( self._table, "match", "" ) tuple1 = ("QName", 1, 5, 5, 0.1, 0.2, "SName", 5, 25, 20, 0.15, 1e-20, 15, 87.2, 1) tuple2 = ("QName", 1, 6, 6, 0.2, 0.1, "SName", 6, 26, 10, 0.18, 1e-30, 18, 85.2, 2) tuple3 = ("QName", 1, 7, 8, 0.1, 0.2, "SName", 5, 20, 15, 0.20, 1e-25, 20, 89.0, 3) tuple4 = ("QName", 1, 8, 8, 0.1, 0.1, "SName", 5, 15, 10, 0.17, 1e-23, 14, 89.5, 4) match1 = Match() match1.setFromTuple( tuple1 ) match2 = Match() match2.setFromTuple( tuple2 ) match3 = Match() match3.setFromTuple( tuple3 ) match4 = Match() match4.setFromTuple( tuple4 ) lMatch = [ match1, match2, match3, match4 ] self._tMatchA.insertList(lMatch) lObs = self._tMatchA.getMatchListFromIdList((1, 2, 3)) lExp = [match1, match2, match3] self.assertEquals(lExp, lObs) def test_getListOfAllMatches( self ): self._iDb.createTable( self._table, "match", "" ) tuple1 = ("QName", 1, 5, 5, 0.1, 0.2, "SName", 5, 25, 20, 0.15, 1e-20, 15, 87.2, 1) tuple2 = ("QName", 1, 6, 6, 0.2, 0.1, "SName", 6, 26, 10, 0.18, 1e-30, 18, 85.2, 2) tuple3 = ("QName", 1, 7, 8, 0.1, 0.2, "SName", 5, 20, 15, 0.20, 1e-25, 20, 89.0, 3) tuple4 = ("QName", 1, 8, 8, 0.1, 0.1, "SName", 5, 15, 10, 0.17, 1e-23, 14, 89.5, 4) match1 = Match() match1.setFromTuple( tuple1 ) match2 = Match() match2.setFromTuple( tuple2 ) match3 = Match() match3.setFromTuple( tuple3 ) match4 = Match() match4.setFromTuple( tuple4 ) lMatch = [ match1, match2, match3, match4 ] expList = [ match1, match2, match3, match4 ] self._tMatchA.insertList(lMatch) obsList = self._tMatchA.getListOfAllMatches() self.assertEqual( expList, obsList ) def test_getListOfAllMatches_empty_table( self ): self._iDb.createTable( self._table, "match", "" ) expList = [] obsList = self._tMatchA.getListOfAllMatches() self.assertEqual( expList, obsList ) test_suite = unittest.TestSuite() test_suite.addTest( unittest.makeSuite( Test_TableMatchAdaptator ) ) if __name__ == "__main__": unittest.TextTestRunner(verbosity=2).run( test_suite )