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Fix Java 17 type inference incompatibility with Spring JDBC queryForObject #300

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Merged
rvosa merged 2 commits into from
Dec 21, 2025

Fix jdbcTemplate.queryForObject type conversion errors by adding expl…

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Merged

Fix Java 17 type inference incompatibility with Spring JDBC queryForObject #300

Fix jdbcTemplate.queryForObject type conversion errors by adding expl…
2552e3f
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GitHub Actions / JUnit Test Results failed Dec 21, 2025 in 0s

168 passed, 115 failed and 0 skipped

Tests failed

Report Passed Failed Skipped Time
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.ActionParserTest.xml 2✅ 1ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.ActionTest.xml 2✅ 1ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.AlternationParserTest.xml 2✅ 0ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.AssignmentParserTest.xml 9✅ 0ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.AssignmentSequenceParserTest.xml 2✅ 0ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.AuxDataTest.xml 15✅ 32ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.FilterParserTest.xml 2✅ 1ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.FilterTest.xml 1✅ 0ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.HeadlineParserTest.xml 2✅ 2ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.LazyListTest.xml 13✅ 1ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.RDParserFailureTest.xml 3✅ 0ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.RDParserResultTest.xml 6✅ 1ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.RDParserTest.xml 1✅ 1ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.RepeatedParserTest.xml 4✅ 1ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.SimpleSectionParserTest.xml 2✅ 0ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.SingleTokenParserTest.xml 2✅ 0ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.SpecificHeadlineParserTest.xml 2✅ 1ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.TokenSequenceParserTest.xml 2✅ 0ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.TokenTest.xml 8✅ 0ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.TreebaseStreamTokenizerTest.xml 7✅ 1ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.ValueAssignmentMapTest.xml 4✅ 0ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.ValueAssignmentTest.xml 2✅ 1ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.ValueSequenceTest.xml 5✅ 1ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.ValueStudyTest.xml 1✅ 0ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.ValueTokenTest.xml 7✅ 0ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.ContextManagerTest.xml 1✅ 488ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.core.CoreServiceLauncherTest.xml 2✅ 438ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.admin.PersonDAOTest.xml 7❌ 57ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.admin.UserDAOTest.xml 10❌ 3s
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.EnvironmentTest.xml 2✅ 3❌ 35ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.matrix.ItemDefinitionDAOTest.xml 2❌ 23ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.matrix.MatrixDAOTest.xml 4❌ 48ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.matrix.MatrixDataTypeDAOTest.xml 1❌ 12ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.matrix.MatrixElementDAOTest.xml 1✅ 10ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.matrix.MatrixRowDAOTest.xml 2✅ 1❌ 27ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.matrix.RowSegmentDAOTest.xml 1✅ 1❌ 14ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.study.AlgorithmDAOTest.xml 1❌ 9ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.study.AnalyzedDataDAOTest.xml 1✅ 2❌ 22ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.study.StudyDAOTest.xml 3✅ 5❌ 53ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.study.StudyStatusDAOTest.xml 3❌ 24ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.study.SubmissionDAOTest.xml 2✅ 5❌ 40ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.taxon.TaxonLabelDAOTest.xml 1❌ 8ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.tree.PhyloTreeDAOTest.xml 1✅ 9❌ 63ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.admin.HelpTest.xml 2❌ 1ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.admin.UserTest.xml 1❌ 1ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.matrix.MatrixTest.xml 2❌ 29ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.matrix.RowSegmentTest.xml 1❌ 14ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.matrix.SpecimenLabelTest.xml 1❌ 11ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.matrix.StateSetMapperTest.xml 4✅ 0ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.nexus.MesquiteConverterTest.xml 1✅ 92ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.nexus.NexmlAnalysisConverterTest.xml 1❌ 10ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.nexus.NexmlMatrixConverterTest.xml 3❌ 21ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.nexus.NexmlSearchResultConverterTest.xml 6❌ 31ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.nexus.NexmlSerializationTest.xml 2❌ 23ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.nexus.NexmlTreeConverterTest.xml 1❌ 10ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.nexus.NexusMesquiteDataSetTest.xml 1❌ 5ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.search.SearchResultsTest.xml 7❌ 24ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.study.CitationTest.xml 1❌ 9ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.study.StudyTest.xml 1✅ 1❌ 8ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.taxon.TaxonLabelTest.xml 5❌ 16ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.tree.PhyloTreeTest.xml 2❌ 4ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.framework.TSVFileParserTest.xml 1✅ 0ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.RangeExpressionTest.xml 3✅ 10ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.service.admin.HelpServiceImplTest.xml 3✅ 1ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.service.admin.UserServiceImplTest.xml 6✅ 0ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.service.matrix.MatrixServiceImplTest.xml 2❌ 18ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.service.matrix.RowSegmentServiceImplTest.xml 1✅ 4ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.service.nexus.NexusParserTest.xml 1✅ 9ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.service.study.AnalysisServiceImplTest.xml 1❌ 9ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.service.study.StudyServiceImplTest.xml 6❌ 55ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.service.study.SubmissionServiceImplTest.xml 1❌ 1ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.service.taxon.TaxonLabelServiceImplTest.xml 1✅ 10❌ 10s
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.service.tree.PhyloTreeServiceImplTest.xml 3❌ 35ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.TestUtil.xml 0ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.TreebaseIDStringTest.xml 6✅ 0ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.TreebaseUtilTest.xml 1✅ 0ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.util.HashFieldReaderTest.xml 7✅ 0ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.util.ObjectGroupMergerTest.xml 2✅ 0ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.util.UnixOptionsTest.xml 6✅ 0ms
treebase-core/target/surefire-reports/TEST-org.cipres.treebase.XMLTestCase.xml 2✅ 154ms

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.ActionParserTest.xml

2 tests were completed in 1ms with 2 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.auxdata.ActionParserTest 2✅ 1ms

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.ActionTest.xml

2 tests were completed in 1ms with 2 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.auxdata.ActionTest 2✅ 1ms

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.AlternationParserTest.xml

2 tests were completed in 0ms with 2 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.auxdata.AlternationParserTest 2✅ 0ms

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.AssignmentParserTest.xml

9 tests were completed in 0ms with 9 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.auxdata.AssignmentParserTest 9✅ 0ms

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.AssignmentSequenceParserTest.xml

2 tests were completed in 0ms with 2 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.auxdata.AssignmentSequenceParserTest 2✅ 0ms

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.AuxDataTest.xml

15 tests were completed in 32ms with 15 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.auxdata.AuxDataTest 15✅ 32ms

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.FilterParserTest.xml

2 tests were completed in 1ms with 2 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.auxdata.FilterParserTest 2✅ 1ms

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.FilterTest.xml

1 tests were completed in 0ms with 1 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.auxdata.FilterTest 1✅ 0ms

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.HeadlineParserTest.xml

2 tests were completed in 2ms with 2 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.auxdata.HeadlineParserTest 2✅ 2ms

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.LazyListTest.xml

13 tests were completed in 1ms with 13 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.auxdata.LazyListTest 13✅ 1ms

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.RDParserFailureTest.xml

3 tests were completed in 0ms with 3 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.auxdata.RDParserFailureTest 3✅ 0ms

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.RDParserResultTest.xml

6 tests were completed in 1ms with 6 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.auxdata.RDParserResultTest 6✅ 1ms

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.RDParserTest.xml

1 tests were completed in 1ms with 1 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.auxdata.RDParserTest 1✅ 1ms

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.RepeatedParserTest.xml

4 tests were completed in 1ms with 4 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.auxdata.RepeatedParserTest 4✅ 1ms

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.SimpleSectionParserTest.xml

2 tests were completed in 0ms with 2 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.auxdata.SimpleSectionParserTest 2✅ 0ms

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.SingleTokenParserTest.xml

2 tests were completed in 0ms with 2 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.auxdata.SingleTokenParserTest 2✅ 0ms

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.SpecificHeadlineParserTest.xml

2 tests were completed in 1ms with 2 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.auxdata.SpecificHeadlineParserTest 2✅ 1ms

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.TokenSequenceParserTest.xml

2 tests were completed in 0ms with 2 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.auxdata.TokenSequenceParserTest 2✅ 0ms

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.TokenTest.xml

8 tests were completed in 0ms with 8 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.auxdata.TokenTest 8✅ 0ms

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.TreebaseStreamTokenizerTest.xml

7 tests were completed in 1ms with 7 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.auxdata.TreebaseStreamTokenizerTest 7✅ 1ms

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.ValueAssignmentMapTest.xml

4 tests were completed in 0ms with 4 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.auxdata.ValueAssignmentMapTest 4✅ 0ms

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.ValueAssignmentTest.xml

2 tests were completed in 1ms with 2 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.auxdata.ValueAssignmentTest 2✅ 1ms

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.ValueSequenceTest.xml

5 tests were completed in 1ms with 5 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.auxdata.ValueSequenceTest 5✅ 1ms

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.ValueStudyTest.xml

1 tests were completed in 0ms with 1 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.auxdata.ValueStudyTest 1✅ 0ms

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.auxdata.ValueTokenTest.xml

7 tests were completed in 0ms with 7 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.auxdata.ValueTokenTest 7✅ 0ms

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.ContextManagerTest.xml

1 tests were completed in 488ms with 1 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.ContextManagerTest 1✅ 488ms

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.core.CoreServiceLauncherTest.xml

2 tests were completed in 438ms with 2 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.core.CoreServiceLauncherTest 2✅ 438ms

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.admin.PersonDAOTest.xml

7 tests were completed in 57ms with 0 passed, 7 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.dao.admin.PersonDAOTest 7❌ 57ms

❌ org.cipres.treebase.dao.admin.PersonDAOTest

❌ testDelete
	org.springframework.dao.InvalidDataAccessResourceUsageException: could not get next sequence value; nested exception is org.hibernate.exception.SQLGrammarException: could not get next sequence value
❌ testFindByID
	org.springframework.jdbc.BadSqlGrammarException:
❌ testFindByExactMatch
	org.hibernate.exception.SQLGrammarException: could not execute query
❌ testFindByLastName
	org.springframework.jdbc.BadSqlGrammarException:
❌ testFindCompleteEmailAddress
	org.springframework.jdbc.BadSqlGrammarException:
❌ testFindDuplicateWithFirstAndLastNames
	org.hibernate.exception.SQLGrammarException: could not execute query
❌ testFindDuplicateWithLastNames
	org.hibernate.exception.SQLGrammarException: could not execute query

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.admin.UserDAOTest.xml

10 tests were completed in 3s with 0 passed, 10 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.dao.admin.UserDAOTest 10❌ 3s

❌ org.cipres.treebase.dao.admin.UserDAOTest

❌ testDelete_Negative
	org.springframework.jdbc.BadSqlGrammarException:
❌ testFindByUserName
	org.springframework.jdbc.BadSqlGrammarException:
❌ testFindByUserRole
	org.springframework.dao.InvalidDataAccessResourceUsageException: could not execute query; nested exception is org.hibernate.exception.SQLGrammarException: could not execute query
❌ testFindByPerson
	org.hibernate.exception.SQLGrammarException: could not execute query
❌ testFindByEmailAddress
	org.springframework.jdbc.BadSqlGrammarException:
❌ testFindByEmailAddressNegative
	org.springframework.dao.InvalidDataAccessResourceUsageException: could not execute query; nested exception is org.hibernate.exception.SQLGrammarException: could not execute query
❌ testFindByEmailAddressLike
	org.springframework.jdbc.BadSqlGrammarException:
❌ testMerge
	org.springframework.dao.InvalidDataAccessResourceUsageException: could not execute query; nested exception is org.hibernate.exception.SQLGrammarException: could not execute query
❌ testFindByUserName_Negative
	org.springframework.dao.InvalidDataAccessResourceUsageException: could not execute query; nested exception is org.hibernate.exception.SQLGrammarException: could not execute query
❌ testCreateDelete
	org.springframework.dao.InvalidDataAccessResourceUsageException: could not get next sequence value; nested exception is org.hibernate.exception.SQLGrammarException: could not get next sequence value

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.EnvironmentTest.xml

5 tests were completed in 35ms with 2 passed, 3 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.dao.EnvironmentTest 2✅ 3❌ 35ms

❌ org.cipres.treebase.dao.EnvironmentTest

✅ testProperty
✅ testC3p0
❌ testHibernateQueryStatement
	org.hibernate.exception.SQLGrammarException: could not execute update query
❌ testGetGeneratedKey
	org.postgresql.util.PSQLException:
❌ testSelectFromInsert
	org.postgresql.util.PSQLException:

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.matrix.ItemDefinitionDAOTest.xml

2 tests were completed in 23ms with 0 passed, 2 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.dao.matrix.ItemDefinitionDAOTest 2❌ 23ms

❌ org.cipres.treebase.dao.matrix.ItemDefinitionDAOTest

❌ testFindByDescription
	org.hibernate.exception.SQLGrammarException: could not execute query
❌ testFindPredefinedItemDefinition
	org.hibernate.exception.SQLGrammarException: could not execute query

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.matrix.MatrixDAOTest.xml

4 tests were completed in 48ms with 0 passed, 4 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.dao.matrix.MatrixDAOTest 4❌ 48ms

❌ org.cipres.treebase.dao.matrix.MatrixDAOTest

❌ testfindKindByDescription
	org.hibernate.exception.SQLGrammarException: could not execute query
❌ testfindByNexusFileName
	org.springframework.jdbc.BadSqlGrammarException:
❌ testfindRowAsString
	org.hibernate.exception.SQLGrammarException: could not load an entity: [org.cipres.treebase.domain.matrix.CharacterMatrix#265]
❌ testupdatePublishedFlagByStudy
	org.springframework.jdbc.BadSqlGrammarException:

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.matrix.MatrixDataTypeDAOTest.xml

1 tests were completed in 12ms with 0 passed, 1 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.dao.matrix.MatrixDataTypeDAOTest 1❌ 12ms

❌ org.cipres.treebase.dao.matrix.MatrixDataTypeDAOTest

❌ testFindByDescription
	org.hibernate.exception.SQLGrammarException: could not execute query

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.matrix.MatrixElementDAOTest.xml

1 tests were completed in 10ms with 1 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.dao.matrix.MatrixElementDAOTest 1✅ 10ms

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.matrix.MatrixRowDAOTest.xml

3 tests were completed in 27ms with 2 passed, 1 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.dao.matrix.MatrixRowDAOTest 2✅ 1❌ 27ms

❌ org.cipres.treebase.dao.matrix.MatrixRowDAOTest

❌ testFindByLabel
	org.hibernate.exception.SQLGrammarException: could not execute query
✅ testDeleteRows
✅ testDeleteRowsEmpty

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.matrix.RowSegmentDAOTest.xml

2 tests were completed in 14ms with 1 passed, 1 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.dao.matrix.RowSegmentDAOTest 1✅ 1❌ 14ms

❌ org.cipres.treebase.dao.matrix.RowSegmentDAOTest

❌ testFindByMatrixID
	org.hibernate.exception.SQLGrammarException: could not execute query
✅ testdeleteByMatrixAndColumnRange

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.study.AlgorithmDAOTest.xml

1 tests were completed in 9ms with 0 passed, 1 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.dao.study.AlgorithmDAOTest 1❌ 9ms

❌ org.cipres.treebase.dao.study.AlgorithmDAOTest

❌ testFinalAllUniqueAlgorithmDescriptions
	org.hibernate.exception.SQLGrammarException: could not execute query

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.study.AnalyzedDataDAOTest.xml

3 tests were completed in 22ms with 1 passed, 2 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.dao.study.AnalyzedDataDAOTest 1✅ 2❌ 22ms

❌ org.cipres.treebase.dao.study.AnalyzedDataDAOTest

✅ testAnalyzedDataDAO_1
❌ testFindByMatrix_fixture_1
	org.springframework.jdbc.BadSqlGrammarException:
❌ testFindByTree_fixture_1
	org.springframework.jdbc.BadSqlGrammarException:

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.study.StudyDAOTest.xml

8 tests were completed in 53ms with 3 passed, 5 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.dao.study.StudyDAOTest 3✅ 5❌ 53ms

❌ org.cipres.treebase.dao.study.StudyDAOTest

❌ testFindByCriteria
	org.hibernate.exception.SQLGrammarException: could not execute query
❌ testPersistNexusClob
	org.hibernate.exception.SQLGrammarException: could not execute query
❌ testFindByPublicationDateRange
	org.hibernate.exception.SQLGrammarException: could not execute query
❌ testFindByTBStudyID
	org.springframework.dao.InvalidDataAccessResourceUsageException: could not load an entity: [org.cipres.treebase.domain.study.Study#1]; nested exception is org.hibernate.exception.SQLGrammarException: could not load an entity: [org.cipres.treebase.domain.study.Study#1]
✅ testFindByAuthor
✅ testFindByAccessionNumber
❌ testFindByAbstract
	org.hibernate.exception.SQLGrammarException: could not execute query
✅ testFindBySubmitter

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.study.StudyStatusDAOTest.xml

3 tests were completed in 24ms with 0 passed, 3 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.dao.study.StudyStatusDAOTest 3❌ 24ms

❌ org.cipres.treebase.dao.study.StudyStatusDAOTest

❌ testFindStatusInProgress
	org.hibernate.exception.SQLGrammarException: could not execute query
❌ testFindStatusReady
	org.hibernate.exception.SQLGrammarException: could not execute query
❌ testFindStatusPublished
	org.hibernate.exception.SQLGrammarException: could not execute query

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.study.SubmissionDAOTest.xml

7 tests were completed in 40ms with 2 passed, 5 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.dao.study.SubmissionDAOTest 2✅ 5❌ 40ms

❌ org.cipres.treebase.dao.study.SubmissionDAOTest

✅ testFindBySubmissionNumber
❌ testFindByReadyState
	org.hibernate.exception.SQLGrammarException: could not execute query
❌ testFindByCreateDateRange
	org.hibernate.exception.SQLGrammarException: could not execute query
❌ testFindByLastModifiedDateRange
	org.hibernate.exception.SQLGrammarException: could not execute query
❌ testFindByMatrix
	org.springframework.jdbc.BadSqlGrammarException:
❌ testFindByTree
	org.springframework.jdbc.BadSqlGrammarException:
✅ testDelete

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.taxon.TaxonLabelDAOTest.xml

1 tests were completed in 8ms with 0 passed, 1 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.dao.taxon.TaxonLabelDAOTest 1❌ 8ms

❌ org.cipres.treebase.dao.taxon.TaxonLabelDAOTest

❌ testFindTaxonLabelSets
	org.hibernate.exception.SQLGrammarException: could not execute query

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.tree.PhyloTreeDAOTest.xml

10 tests were completed in 63ms with 1 passed, 9 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.dao.tree.PhyloTreeDAOTest 1✅ 9❌ 63ms

❌ org.cipres.treebase.dao.tree.PhyloTreeDAOTest

❌ testCreateDelete
	org.springframework.dao.InvalidDataAccessResourceUsageException: could not get next sequence value; nested exception is org.hibernate.exception.SQLGrammarException: could not get next sequence value
❌ testFindNodesByTaxonLabel
	org.springframework.jdbc.BadSqlGrammarException:
❌ testFindByAnyTaxonLabel
	org.springframework.jdbc.BadSqlGrammarException:
❌ testFindByStudy
	org.springframework.jdbc.BadSqlGrammarException:
❌ testfindQualityByDescription
	org.hibernate.exception.SQLGrammarException: could not execute query
❌ testFindTypeByDescription
	org.hibernate.exception.SQLGrammarException: could not execute query
❌ testfindKindByDescription
	org.hibernate.exception.SQLGrammarException: could not execute query
❌ testupdatePublishedFlagByStudy
	org.springframework.jdbc.BadSqlGrammarException:
✅ testFindByTopology3
❌ testFindByTreeType
	org.hibernate.exception.SQLGrammarException: could not execute query

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.admin.HelpTest.xml

2 tests were completed in 1ms with 0 passed, 2 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.domain.admin.HelpTest 2❌ 1ms

❌ org.cipres.treebase.domain.admin.HelpTest

❌ testGetHelp
	org.hibernate.exception.SQLGrammarException: could not execute query
❌ testChangeMessage
	org.hibernate.exception.SQLGrammarException: could not execute query

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.admin.UserTest.xml

1 tests were completed in 1ms with 0 passed, 1 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.domain.admin.UserTest 1❌ 1ms

❌ org.cipres.treebase.domain.admin.UserTest

❌ testgetInProgressSubmissions
	org.springframework.dao.InvalidDataAccessResourceUsageException: could not execute query; nested exception is org.hibernate.exception.SQLGrammarException: could not execute query

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.matrix.MatrixTest.xml

2 tests were completed in 29ms with 0 passed, 2 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.domain.matrix.MatrixTest 2❌ 29ms

❌ org.cipres.treebase.domain.matrix.MatrixTest

❌ testGetFormatInfo
	org.hibernate.exception.SQLGrammarException: could not load an entity: [org.cipres.treebase.domain.matrix.Matrix#265]
❌ testGenerateNexusBlock
	org.hibernate.exception.SQLGrammarException: could not load an entity: [org.cipres.treebase.domain.matrix.Matrix#683]

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.matrix.RowSegmentTest.xml

1 tests were completed in 14ms with 0 passed, 1 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.domain.matrix.RowSegmentTest 1❌ 14ms

❌ org.cipres.treebase.domain.matrix.RowSegmentTest

❌ testGetSpecimenInfo
	org.springframework.dao.InvalidDataAccessResourceUsageException: could not execute query; nested exception is org.hibernate.exception.SQLGrammarException: could not execute query

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.matrix.SpecimenLabelTest.xml

1 tests were completed in 11ms with 0 passed, 1 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.domain.matrix.SpecimenLabelTest 1❌ 11ms

❌ org.cipres.treebase.domain.matrix.SpecimenLabelTest

❌ testGetInfo
	org.springframework.dao.InvalidDataAccessResourceUsageException: could not execute query; nested exception is org.hibernate.exception.SQLGrammarException: could not execute query

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.matrix.StateSetMapperTest.xml

4 tests were completed in 0ms with 4 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.domain.matrix.StateSetMapperTest 4✅ 0ms

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.nexus.MesquiteConverterTest.xml

1 tests were completed in 92ms with 1 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.domain.nexus.MesquiteConverterTest 1✅ 92ms

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.nexus.NexmlAnalysisConverterTest.xml

1 tests were completed in 10ms with 0 passed, 1 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.domain.nexus.NexmlAnalysisConverterTest 1❌ 10ms

❌ org.cipres.treebase.domain.nexus.NexmlAnalysisConverterTest

❌ testNexmlAnalysisConverter
	org.hibernate.exception.GenericJDBCException: could not load an entity batch: [org.cipres.treebase.domain.study.Citation#<794, 1787>]

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.nexus.NexmlMatrixConverterTest.xml

3 tests were completed in 21ms with 0 passed, 3 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.domain.nexus.NexmlMatrixConverterTest 3❌ 21ms

❌ org.cipres.treebase.domain.nexus.NexmlMatrixConverterTest

❌ testNexmlMatrixConverter
	org.hibernate.exception.SQLGrammarException: could not load an entity: [org.cipres.treebase.domain.study.Study#794]
❌ testNexmlEmptyMatrix
	org.hibernate.exception.SQLGrammarException: could not load an entity: [org.cipres.treebase.domain.study.Study#586]
❌ testNexmlMatrixCharSets
	org.hibernate.exception.SQLGrammarException: could not load an entity: [org.cipres.treebase.domain.study.Study#794]

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.nexus.NexmlSearchResultConverterTest.xml

6 tests were completed in 31ms with 0 passed, 6 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.domain.nexus.NexmlSearchResultConverterTest 6❌ 31ms

❌ org.cipres.treebase.domain.nexus.NexmlSearchResultConverterTest

❌ testMatrixSearchSerialization
	org.hibernate.exception.SQLGrammarException: could not execute query
❌ testTreeSearchSerialization
	org.hibernate.exception.GenericJDBCException: could not execute query
❌ testTaxonSearchSerialization
	org.hibernate.exception.GenericJDBCException: could not execute query
❌ testQuickCheck
	org.hibernate.exception.GenericJDBCException: could not execute query
❌ testStudySearchSerialization
	org.hibernate.exception.GenericJDBCException: could not execute query
❌ testTrivial
	org.hibernate.exception.GenericJDBCException: could not execute query

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.nexus.NexmlSerializationTest.xml

2 tests were completed in 23ms with 0 passed, 2 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.domain.nexus.NexmlSerializationTest 2❌ 23ms

❌ org.cipres.treebase.domain.nexus.NexmlSerializationTest

❌ testSerializeStudy
	org.hibernate.exception.GenericJDBCException: could not load an entity: [org.cipres.treebase.domain.study.Study#1787]
❌ testSerializeTree
	org.hibernate.exception.GenericJDBCException: could not load an entity: [org.cipres.treebase.domain.tree.PhyloTree#4816]

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.nexus.NexmlTreeConverterTest.xml

1 tests were completed in 10ms with 0 passed, 1 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.domain.nexus.NexmlTreeConverterTest 1❌ 10ms

❌ org.cipres.treebase.domain.nexus.NexmlTreeConverterTest

❌ testNexmlTreeConverter
	org.hibernate.exception.GenericJDBCException: could not load an entity batch: [org.cipres.treebase.domain.study.Citation#<2048, 1787, 794>]

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.nexus.NexusMesquiteDataSetTest.xml

1 tests were completed in 5ms with 0 passed, 1 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.domain.nexus.NexusMesquiteDataSetTest 1❌ 5ms

❌ org.cipres.treebase.domain.nexus.NexusMesquiteDataSetTest

❌ testMesqutieFolderDir
	org.springframework.beans.factory.UnsatisfiedDependencyException: Error creating bean with name 'org.cipres.treebase.domain.nexus.NexusMesquiteDataSetTest': Unsatisfied dependency expressed through bean property 'fixture': There are 3 beans of type [org.cipres.treebase.domain.nexus.NexusService] available for autowiring by type: [nexusService, nexmlService, rdfaService]. There should have been exactly 1 to be able to autowire property 'fixture' of bean 'org.cipres.treebase.domain.nexus.NexusMesquiteDataSetTest'. Consider using autowiring by name instead.

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.search.SearchResultsTest.xml

7 tests were completed in 24ms with 0 passed, 7 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.domain.search.SearchResultsTest 7❌ 24ms

❌ org.cipres.treebase.domain.search.SearchResultsTest

❌ testQuickCheck
	org.hibernate.exception.GenericJDBCException: could not execute query
❌ testTrivial
	org.hibernate.exception.GenericJDBCException: could not execute query
❌ testSearchService
	org.hibernate.exception.GenericJDBCException: could not execute query
❌ testConvertToMatrices
	org.hibernate.exception.GenericJDBCException: could not execute query
❌ testConvertFromMatrices
	org.hibernate.exception.GenericJDBCException: could not execute query
❌ testConvertToTrees
	org.hibernate.exception.GenericJDBCException: could not execute query
❌ testConvertFromTrees
	org.hibernate.exception.GenericJDBCException: could not execute query

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.study.CitationTest.xml

1 tests were completed in 9ms with 0 passed, 1 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.domain.study.CitationTest 1❌ 9ms

❌ org.cipres.treebase.domain.study.CitationTest

❌ testSetAuthors
	org.springframework.jdbc.UncategorizedSQLException: Hibernate operation: could not execute query; uncategorized SQLException for SQL [select this_.CITATION_ID as CITATION2_43_5_, this_.VERSION as VERSION43_5_, this_.PMID as PMID43_5_, this_.URL as URL43_5_, this_.ABSTRACT as ABSTRACT43_5_, this_.CITATIONSTATUS_ID as CITATIO20_43_5_, this_.Doi as Doi43_5_, this_.Keywords as Keywords43_5_, this_.Pages as Pages43_5_, this_.PublishYear as Publish10_43_5_, this_.Published as Published43_5_, this_.Title as Title43_5_, this_.Issue as Issue43_5_, this_.Journal as Journal43_5_, this_.Volume as Volume43_5_, this_.ISBN as ISBN43_5_, this_.BookTitle as BookTitle43_5_, this_.City as City43_5_, this_.Publisher as Publisher43_5_, this_.TYPE as TYPE43_5_, authors2_.CITATION_ID as CITATION1_7_, person3_.PERSON_ID as authors2_7_, authors2_.AUTHOR_ORDER as AUTHOR3_7_, person3_.PERSON_ID as PERSON1_1_0_, person3_.VERSION as VERSION1_0_, person3_.EMAIL as EMAIL1_0_, person3_.FIRSTNAME as FIRSTNAME1_0_, person3_.LASTNAME as LASTNAME1_0_, person3_.MNAME as MNAME1_0_, person3_.PHONE as PHONE1_0_, citationst4_.CITATIONSTATUS_ID as CITATION1_44_1_, citationst4_.VERSION as VERSION44_1_, citationst4_.Description as Descript3_44_1_, study5_.STUDY_ID as STUDY1_46_2_, study5_.VERSION as VERSION46_2_, study5_.TB_STUDYID as TB3_46_2_, study5_.ACCESSIONNUMBER as ACCESSIO4_46_2_, study5_.CITATION_ID as CITATION9_46_2_, study5_.LastModifiedDate as LastModi5_46_2_, study5_.NAME as NAME46_2_, study5_.Notes as Notes46_2_, study5_.ReleaseDate as ReleaseD8_46_2_, study5_.USER_ID as USER10_46_2_, study5_.STUDYSTATUS_ID as STUDYST11_46_2_, studystatu6_.STUDYSTATUS_ID as STUDYSTA1_47_3_, studystatu6_.VERSION as VERSION47_3_, studystatu6_.Description as Descript3_47_3_, submission7_.SUBMISSION_ID as SUBMISSION1_48_4_, submission7_.VERSION as VERSION48_4_, submission7_.CreateDate as CreateDate48_4_, submission7_.STUDY_ID as STUDY6_48_4_, submission7_.SubmissionNumber as Submissi4_48_4_, submission7_.USER_ID as USER7_48_4_, submission7_.Test as Test48_4_ from CITATION this_ left outer join CITATION_AUTHOR authors2_ on this_.CITATION_ID=authors2_.CITATION_ID left outer join PERSON person3_ on authors2_.authors_PERSON_ID=person3_.PERSON_ID left outer join CITATIONSTATUS citationst4_ on this_.CITATIONSTATUS_ID=citationst4_.CITATIONSTATUS_ID left outer join STUDY study5_ on this_.CITATION_ID=study5_.CITATION_ID left outer join STUDYSTATUS studystatu6_ on study5_.STUDYSTATUS_ID=studystatu6_.STUDYSTATUS_ID left outer join SUBMISSION submission7_ on study5_.STUDY_ID=submission7_.STUDY_ID]; SQL state [25P02]; error code [0]; ERROR: current transaction is aborted, commands ignored until end of transaction block; nested exception is org.postgresql.util.PSQLException: ERROR: current transaction is aborted, commands ignored until end of transaction block

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.study.StudyTest.xml

2 tests were completed in 8ms with 1 passed, 1 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.domain.study.StudyTest 1✅ 1❌ 8ms

❌ org.cipres.treebase.domain.study.StudyTest

✅ testSetAuthors
❌ testGetAnalyses
	org.hibernate.exception.GenericJDBCException: could not execute query

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.taxon.TaxonLabelTest.xml

5 tests were completed in 16ms with 0 passed, 5 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.domain.taxon.TaxonLabelTest 5❌ 16ms

❌ org.cipres.treebase.domain.taxon.TaxonLabelTest

❌ testFindBySubstring
	org.hibernate.exception.GenericJDBCException: could not execute query
❌ testFindMatricesByTaxonLabel
	org.hibernate.exception.GenericJDBCException: could not execute query
❌ testTaxonLabelLengthSorting
	org.hibernate.exception.GenericJDBCException: could not execute query
❌ testFindMatricesByTaxonVariant
	org.hibernate.exception.GenericJDBCException: could not execute query
❌ testFindStudies
	org.hibernate.exception.GenericJDBCException: could not execute query

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.domain.tree.PhyloTreeTest.xml

2 tests were completed in 4ms with 0 passed, 2 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.domain.tree.PhyloTreeTest 2❌ 4ms

❌ org.cipres.treebase.domain.tree.PhyloTreeTest

❌ testBuildNewickStringPerf
	org.hibernate.exception.GenericJDBCException: could not load an entity batch: [org.cipres.treebase.domain.study.Study#<380, 4816>]
❌ testUpdateNewickString
	org.hibernate.exception.GenericJDBCException: could not execute query

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.framework.TSVFileParserTest.xml

1 tests were completed in 0ms with 1 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.framework.TSVFileParserTest 1✅ 0ms

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.RangeExpressionTest.xml

3 tests were completed in 10ms with 3 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.RangeExpressionTest 3✅ 10ms

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.service.admin.HelpServiceImplTest.xml

3 tests were completed in 1ms with 3 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.service.admin.HelpServiceImplTest 3✅ 1ms

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.service.admin.UserServiceImplTest.xml

6 tests were completed in 0ms with 6 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.service.admin.UserServiceImplTest 6✅ 0ms

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.service.matrix.MatrixServiceImplTest.xml

2 tests were completed in 18ms with 0 passed, 2 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.service.matrix.MatrixServiceImplTest 2❌ 18ms

❌ org.cipres.treebase.service.matrix.MatrixServiceImplTest

❌ testFindSomethingByRangeExpression
	org.hibernate.exception.SQLGrammarException: could not execute query
❌ testAddDelete
	org.hibernate.exception.SQLGrammarException: could not execute query

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.service.matrix.RowSegmentServiceImplTest.xml

1 tests were completed in 4ms with 1 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.service.matrix.RowSegmentServiceImplTest 1✅ 4ms

✅ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.service.nexus.NexusParserTest.xml

1 tests were completed in 9ms with 1 passed, 0 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.service.nexus.NexusParserTest 1✅ 9ms

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.service.study.AnalysisServiceImplTest.xml

1 tests were completed in 9ms with 0 passed, 1 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.service.study.AnalysisServiceImplTest 1❌ 9ms

❌ org.cipres.treebase.service.study.AnalysisServiceImplTest

❌ testAddDelete
	org.hibernate.exception.SQLGrammarException: could not execute query

❌ treebase-core/target/surefire-reports/TEST-org.cipres.treebase.service.study.StudyServiceImplTest.xml

6 tests were completed in 55ms with 0 passed, 6 failed and 0 skipped.

Test suite Passed Failed Skipped Time
org.cipres.treebase.service.study.StudyServiceImplTest 6❌ 55ms

❌ org.cipres.treebase.service.study.StudyServiceImplTest

❌ testAddDelete
	org.hibernate.exception.SQLGrammarException: could not execute query
❌ testAddAnalysis
	org.hibernate.exception.SQLGrammarException: could not execute query
❌ testAddNexus
	org.hibernate.exception.SQLGrammarException: could not execute query
❌ testAddAnalysisByUpdate
	org.hibernate.exception.SQLGrammarException: could not execute query
❌ testAddNexusFile
	org.hibernate.exception.SQLGrammarException: could not execute query

Report exceeded GitHub limit of 65535 bytes and has been trimmed

Annotations

Check failure on line 64 in treebase-core/src/main/java/org/cipres/treebase/dao/AbstractDAO.java

See this annotation in the file changed.

@github-actions github-actions / JUnit Test Results

org.cipres.treebase.dao.admin.PersonDAOTest ► testDelete 

Failed test found in:
  treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.admin.PersonDAOTest.xml
Error:
  org.springframework.dao.InvalidDataAccessResourceUsageException: could not get next sequence value; nested exception is org.hibernate.exception.SQLGrammarException: could not get next sequence value
Raw output 
org.springframework.dao.InvalidDataAccessResourceUsageException: could not get next sequence value; nested exception is org.hibernate.exception.SQLGrammarException: could not get next sequence value
Caused by: org.hibernate.exception.SQLGrammarException: could not get next sequence value
	at org.hibernate.exception.SQLStateConverter.convert(SQLStateConverter.java:67)
	at org.hibernate.exception.JDBCExceptionHelper.convert(JDBCExceptionHelper.java:43)
	at org.hibernate.id.SequenceGenerator.generate(SequenceGenerator.java:96)
	at org.hibernate.event.def.AbstractSaveEventListener.saveWithGeneratedId(AbstractSaveEventListener.java:99)
	at org.hibernate.event.def.DefaultPersistEventListener.entityIsTransient(DefaultPersistEventListener.java:131)
	at org.hibernate.event.def.DefaultPersistEventListener.onPersist(DefaultPersistEventListener.java:87)
	at org.hibernate.event.def.DefaultPersistEventListener.onPersist(DefaultPersistEventListener.java:38)
	at org.hibernate.impl.SessionImpl.firePersist(SessionImpl.java:618)
	at org.hibernate.impl.SessionImpl.persist(SessionImpl.java:592)
	at org.hibernate.impl.SessionImpl.persist(SessionImpl.java:596)
	at org.springframework.orm.hibernate3.HibernateTemplate$21.doInHibernate(HibernateTemplate.java:745)
	at org.springframework.orm.hibernate3.HibernateTemplate.execute(HibernateTemplate.java:372)
	at org.springframework.orm.hibernate3.HibernateTemplate.persist(HibernateTemplate.java:742)
	at org.cipres.treebase.dao.AbstractDAO.store(AbstractDAO.java:64)
	at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:498)
	at org.springframework.aop.support.AopUtils.invokeJoinpointUsingReflection(AopUtils.java:304)
	at org.springframework.aop.framework.ReflectiveMethodInvocation.invokeJoinpoint(ReflectiveMethodInvocation.java:182)
	at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:149)
	at org.springframework.transaction.interceptor.TransactionInterceptor.invoke(TransactionInterceptor.java:106)
	at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:171)
	at org.springframework.aop.framework.JdkDynamicAopProxy.invoke(JdkDynamicAopProxy.java:204)
	at com.sun.proxy.$Proxy50.store(Unknown Source)
	at org.cipres.treebase.dao.admin.PersonDAOTest.testDelete(PersonDAOTest.java:70)
	at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:498)
	at junit.framework.TestCase.runTest(TestCase.java:154)
	at junit.framework.TestCase.runBare(TestCase.java:127)
	at org.springframework.test.ConditionalTestCase.runBare(ConditionalTestCase.java:69)
	at junit.framework.TestResult$1.protect(TestResult.java:106)
	at junit.framework.TestResult.runProtected(TestResult.java:124)
	at junit.framework.TestResult.run(TestResult.java:109)
	at junit.framework.TestCase.run(TestCase.java:118)
	at junit.framework.TestSuite.runTest(TestSuite.java:208)
	at junit.framework.TestSuite.run(TestSuite.java:203)
	at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:498)
	at org.apache.maven.surefire.junit.JUnitTestSetExecutor.execute(JUnitTestSetExecutor.java:81)
	at org.apache.maven.surefire.junit.JUnit3Provider.executeTestSet(JUnit3Provider.java:131)
	at org.apache.maven.surefire.junit.JUnit3Provider.invoke(JUnit3Provider.java:93)
	at org.apache.maven.surefire.booter.ForkedBooter.runSuitesInProcess(ForkedBooter.java:385)
	at org.apache.maven.surefire.booter.ForkedBooter.execute(ForkedBooter.java:162)
	at org.apache.maven.surefire.booter.ForkedBooter.run(ForkedBooter.java:507)
	at org.apache.maven.surefire.booter.ForkedBooter.main(ForkedBooter.java:495)
Caused by: org.postgresql.util.PSQLException: ERROR: relation "person_id_sequence" does not exist
  Position: 17
	at org.postgresql.core.v3.QueryExecutorImpl.receiveErrorResponse(QueryExecutorImpl.java:2675)
	at org.postgresql.core.v3.QueryExecutorImpl.processResults(QueryExecutorImpl.java:2365)
	at org.postgresql.core.v3.QueryExecutorImpl.execute(QueryExecutorImpl.java:355)
	at org.postgresql.jdbc.PgStatement.executeInternal(PgStatement.java:490)
	at org.postgresql.jdbc.PgStatement.execute(PgStatement.java:408)
	at org.postgresql.jdbc.PgPreparedStatement.executeWithFlags(PgPreparedStatement.java:166)
	at org.postgresql.jdbc.PgPreparedStatement.executeQuery(PgPreparedStatement.java:118)
	at com.mchange.v2.c3p0.impl.NewProxyPreparedStatement.executeQuery(NewProxyPreparedStatement.java:76)
	at org.hibernate.id.SequenceGenerator.generate(SequenceGenerator.java:75)
	... 47 more

Check failure on line 106 in treebase-core/src/test/java/org/cipres/treebase/dao/admin/PersonDAOTest.java

See this annotation in the file changed.

@github-actions github-actions / JUnit Test Results

org.cipres.treebase.dao.admin.PersonDAOTest ► testFindByID 

Failed test found in:
  treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.admin.PersonDAOTest.xml
Error:
  org.springframework.jdbc.BadSqlGrammarException:
Raw output 
org.springframework.jdbc.BadSqlGrammarException: 
StatementCallback; bad SQL grammar [select person_id from person]; nested exception is org.postgresql.util.PSQLException: ERROR: relation "person" does not exist
  Position: 23
Caused by: org.postgresql.util.PSQLException: ERROR: relation "person" does not exist
  Position: 23
	at org.postgresql.core.v3.QueryExecutorImpl.receiveErrorResponse(QueryExecutorImpl.java:2675)
	at org.postgresql.core.v3.QueryExecutorImpl.processResults(QueryExecutorImpl.java:2365)
	at org.postgresql.core.v3.QueryExecutorImpl.execute(QueryExecutorImpl.java:355)
	at org.postgresql.jdbc.PgStatement.executeInternal(PgStatement.java:490)
	at org.postgresql.jdbc.PgStatement.execute(PgStatement.java:408)
	at org.postgresql.jdbc.PgStatement.executeWithFlags(PgStatement.java:329)
	at org.postgresql.jdbc.PgStatement.executeCachedSql(PgStatement.java:315)
	at org.postgresql.jdbc.PgStatement.executeWithFlags(PgStatement.java:291)
	at org.postgresql.jdbc.PgStatement.executeQuery(PgStatement.java:243)
	at com.mchange.v2.c3p0.impl.NewProxyStatement.executeQuery(NewProxyStatement.java:35)
	at org.springframework.jdbc.core.JdbcTemplate$1QueryStatementCallback.doInStatement(JdbcTemplate.java:390)
	at org.springframework.jdbc.core.JdbcTemplate.execute(JdbcTemplate.java:343)
	at org.springframework.jdbc.core.JdbcTemplate.query(JdbcTemplate.java:405)
	at org.springframework.jdbc.core.JdbcTemplate.query(JdbcTemplate.java:413)
	at org.springframework.jdbc.core.JdbcTemplate.queryForList(JdbcTemplate.java:440)
	at org.cipres.treebase.dao.admin.PersonDAOTest.testFindByID(PersonDAOTest.java:106)
	at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:498)
	at junit.framework.TestCase.runTest(TestCase.java:154)
	at junit.framework.TestCase.runBare(TestCase.java:127)
	at org.springframework.test.ConditionalTestCase.runBare(ConditionalTestCase.java:69)
	at junit.framework.TestResult$1.protect(TestResult.java:106)
	at junit.framework.TestResult.runProtected(TestResult.java:124)
	at junit.framework.TestResult.run(TestResult.java:109)
	at junit.framework.TestCase.run(TestCase.java:118)
	at junit.framework.TestSuite.runTest(TestSuite.java:208)
	at junit.framework.TestSuite.run(TestSuite.java:203)
	at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:498)
	at org.apache.maven.surefire.junit.JUnitTestSetExecutor.execute(JUnitTestSetExecutor.java:81)
	at org.apache.maven.surefire.junit.JUnit3Provider.executeTestSet(JUnit3Provider.java:131)
	at org.apache.maven.surefire.junit.JUnit3Provider.invoke(JUnit3Provider.java:93)
	at org.apache.maven.surefire.booter.ForkedBooter.runSuitesInProcess(ForkedBooter.java:385)
	at org.apache.maven.surefire.booter.ForkedBooter.execute(ForkedBooter.java:162)
	at org.apache.maven.surefire.booter.ForkedBooter.run(ForkedBooter.java:507)
	at org.apache.maven.surefire.booter.ForkedBooter.main(ForkedBooter.java:495)

Check failure on line 164 in treebase-core/src/test/java/org/cipres/treebase/dao/AbstractDAOTest.java

See this annotation in the file changed.

@github-actions github-actions / JUnit Test Results

org.cipres.treebase.dao.admin.PersonDAOTest ► testFindByExactMatch 

Failed test found in:
  treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.admin.PersonDAOTest.xml
Error:
  org.hibernate.exception.SQLGrammarException: could not execute query
Raw output 
org.hibernate.exception.SQLGrammarException: could not execute query
	at org.hibernate.exception.SQLStateConverter.convert(SQLStateConverter.java:67)
	at org.hibernate.exception.JDBCExceptionHelper.convert(JDBCExceptionHelper.java:43)
	at org.hibernate.loader.Loader.doList(Loader.java:2216)
	at org.hibernate.loader.Loader.listIgnoreQueryCache(Loader.java:2104)
	at org.hibernate.loader.Loader.list(Loader.java:2099)
	at org.hibernate.loader.criteria.CriteriaLoader.list(CriteriaLoader.java:94)
	at org.hibernate.impl.SessionImpl.list(SessionImpl.java:1569)
	at org.hibernate.impl.CriteriaImpl.list(CriteriaImpl.java:283)
	at org.cipres.treebase.dao.AbstractDAOTest.loadObject(AbstractDAOTest.java:164)
	at org.cipres.treebase.dao.admin.PersonDAOTest.testFindByExactMatch(PersonDAOTest.java:138)
	at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:498)
	at junit.framework.TestCase.runTest(TestCase.java:154)
	at junit.framework.TestCase.runBare(TestCase.java:127)
	at org.springframework.test.ConditionalTestCase.runBare(ConditionalTestCase.java:69)
	at junit.framework.TestResult$1.protect(TestResult.java:106)
	at junit.framework.TestResult.runProtected(TestResult.java:124)
	at junit.framework.TestResult.run(TestResult.java:109)
	at junit.framework.TestCase.run(TestCase.java:118)
	at junit.framework.TestSuite.runTest(TestSuite.java:208)
	at junit.framework.TestSuite.run(TestSuite.java:203)
	at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:498)
	at org.apache.maven.surefire.junit.JUnitTestSetExecutor.execute(JUnitTestSetExecutor.java:81)
	at org.apache.maven.surefire.junit.JUnit3Provider.executeTestSet(JUnit3Provider.java:131)
	at org.apache.maven.surefire.junit.JUnit3Provider.invoke(JUnit3Provider.java:93)
	at org.apache.maven.surefire.booter.ForkedBooter.runSuitesInProcess(ForkedBooter.java:385)
	at org.apache.maven.surefire.booter.ForkedBooter.execute(ForkedBooter.java:162)
	at org.apache.maven.surefire.booter.ForkedBooter.run(ForkedBooter.java:507)
	at org.apache.maven.surefire.booter.ForkedBooter.main(ForkedBooter.java:495)
Caused by: org.postgresql.util.PSQLException: ERROR: relation "person" does not exist
  Position: 219
	at org.postgresql.core.v3.QueryExecutorImpl.receiveErrorResponse(QueryExecutorImpl.java:2675)
	at org.postgresql.core.v3.QueryExecutorImpl.processResults(QueryExecutorImpl.java:2365)
	at org.postgresql.core.v3.QueryExecutorImpl.execute(QueryExecutorImpl.java:355)
	at org.postgresql.jdbc.PgStatement.executeInternal(PgStatement.java:490)
	at org.postgresql.jdbc.PgStatement.execute(PgStatement.java:408)
	at org.postgresql.jdbc.PgPreparedStatement.executeWithFlags(PgPreparedStatement.java:166)
	at org.postgresql.jdbc.PgPreparedStatement.executeQuery(PgPreparedStatement.java:118)
	at com.mchange.v2.c3p0.impl.NewProxyPreparedStatement.executeQuery(NewProxyPreparedStatement.java:76)
	at org.hibernate.jdbc.AbstractBatcher.getResultSet(AbstractBatcher.java:186)
	at org.hibernate.loader.Loader.getResultSet(Loader.java:1787)
	at org.hibernate.loader.Loader.doQuery(Loader.java:674)
	at org.hibernate.loader.Loader.doQueryAndInitializeNonLazyCollections(Loader.java:236)
	at org.hibernate.loader.Loader.doList(Loader.java:2213)
	... 31 more

Check failure on line 174 in treebase-core/src/test/java/org/cipres/treebase/dao/admin/PersonDAOTest.java

See this annotation in the file changed.

@github-actions github-actions / JUnit Test Results

org.cipres.treebase.dao.admin.PersonDAOTest ► testFindByLastName 

Failed test found in:
  treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.admin.PersonDAOTest.xml
Error:
  org.springframework.jdbc.BadSqlGrammarException:
Raw output 
org.springframework.jdbc.BadSqlGrammarException: 
StatementCallback; bad SQL grammar [select lastname from person]; nested exception is org.postgresql.util.PSQLException: ERROR: relation "person" does not exist
  Position: 22
Caused by: org.postgresql.util.PSQLException: ERROR: relation "person" does not exist
  Position: 22
	at org.postgresql.core.v3.QueryExecutorImpl.receiveErrorResponse(QueryExecutorImpl.java:2675)
	at org.postgresql.core.v3.QueryExecutorImpl.processResults(QueryExecutorImpl.java:2365)
	at org.postgresql.core.v3.QueryExecutorImpl.execute(QueryExecutorImpl.java:355)
	at org.postgresql.jdbc.PgStatement.executeInternal(PgStatement.java:490)
	at org.postgresql.jdbc.PgStatement.execute(PgStatement.java:408)
	at org.postgresql.jdbc.PgStatement.executeWithFlags(PgStatement.java:329)
	at org.postgresql.jdbc.PgStatement.executeCachedSql(PgStatement.java:315)
	at org.postgresql.jdbc.PgStatement.executeWithFlags(PgStatement.java:291)
	at org.postgresql.jdbc.PgStatement.executeQuery(PgStatement.java:243)
	at com.mchange.v2.c3p0.impl.NewProxyStatement.executeQuery(NewProxyStatement.java:35)
	at org.springframework.jdbc.core.JdbcTemplate$1QueryStatementCallback.doInStatement(JdbcTemplate.java:390)
	at org.springframework.jdbc.core.JdbcTemplate.execute(JdbcTemplate.java:343)
	at org.springframework.jdbc.core.JdbcTemplate.query(JdbcTemplate.java:405)
	at org.springframework.jdbc.core.JdbcTemplate.query(JdbcTemplate.java:413)
	at org.springframework.jdbc.core.JdbcTemplate.queryForList(JdbcTemplate.java:440)
	at org.cipres.treebase.dao.admin.PersonDAOTest.testFindByLastName(PersonDAOTest.java:174)
	at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:498)
	at junit.framework.TestCase.runTest(TestCase.java:154)
	at junit.framework.TestCase.runBare(TestCase.java:127)
	at org.springframework.test.ConditionalTestCase.runBare(ConditionalTestCase.java:69)
	at junit.framework.TestResult$1.protect(TestResult.java:106)
	at junit.framework.TestResult.runProtected(TestResult.java:124)
	at junit.framework.TestResult.run(TestResult.java:109)
	at junit.framework.TestCase.run(TestCase.java:118)
	at junit.framework.TestSuite.runTest(TestSuite.java:208)
	at junit.framework.TestSuite.run(TestSuite.java:203)
	at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:498)
	at org.apache.maven.surefire.junit.JUnitTestSetExecutor.execute(JUnitTestSetExecutor.java:81)
	at org.apache.maven.surefire.junit.JUnit3Provider.executeTestSet(JUnit3Provider.java:131)
	at org.apache.maven.surefire.junit.JUnit3Provider.invoke(JUnit3Provider.java:93)
	at org.apache.maven.surefire.booter.ForkedBooter.runSuitesInProcess(ForkedBooter.java:385)
	at org.apache.maven.surefire.booter.ForkedBooter.execute(ForkedBooter.java:162)
	at org.apache.maven.surefire.booter.ForkedBooter.run(ForkedBooter.java:507)
	at org.apache.maven.surefire.booter.ForkedBooter.main(ForkedBooter.java:495)

Check failure on line 210 in treebase-core/src/test/java/org/cipres/treebase/dao/admin/PersonDAOTest.java

See this annotation in the file changed.

@github-actions github-actions / JUnit Test Results

org.cipres.treebase.dao.admin.PersonDAOTest ► testFindCompleteEmailAddress 

Failed test found in:
  treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.admin.PersonDAOTest.xml
Error:
  org.springframework.jdbc.BadSqlGrammarException:
Raw output 
org.springframework.jdbc.BadSqlGrammarException: 
StatementCallback; bad SQL grammar [select email from person where email is not null]; nested exception is org.postgresql.util.PSQLException: ERROR: relation "person" does not exist
  Position: 19
Caused by: org.postgresql.util.PSQLException: ERROR: relation "person" does not exist
  Position: 19
	at org.postgresql.core.v3.QueryExecutorImpl.receiveErrorResponse(QueryExecutorImpl.java:2675)
	at org.postgresql.core.v3.QueryExecutorImpl.processResults(QueryExecutorImpl.java:2365)
	at org.postgresql.core.v3.QueryExecutorImpl.execute(QueryExecutorImpl.java:355)
	at org.postgresql.jdbc.PgStatement.executeInternal(PgStatement.java:490)
	at org.postgresql.jdbc.PgStatement.execute(PgStatement.java:408)
	at org.postgresql.jdbc.PgStatement.executeWithFlags(PgStatement.java:329)
	at org.postgresql.jdbc.PgStatement.executeCachedSql(PgStatement.java:315)
	at org.postgresql.jdbc.PgStatement.executeWithFlags(PgStatement.java:291)
	at org.postgresql.jdbc.PgStatement.executeQuery(PgStatement.java:243)
	at com.mchange.v2.c3p0.impl.NewProxyStatement.executeQuery(NewProxyStatement.java:35)
	at org.springframework.jdbc.core.JdbcTemplate$1QueryStatementCallback.doInStatement(JdbcTemplate.java:390)
	at org.springframework.jdbc.core.JdbcTemplate.execute(JdbcTemplate.java:343)
	at org.springframework.jdbc.core.JdbcTemplate.query(JdbcTemplate.java:405)
	at org.springframework.jdbc.core.JdbcTemplate.query(JdbcTemplate.java:413)
	at org.springframework.jdbc.core.JdbcTemplate.queryForList(JdbcTemplate.java:440)
	at org.cipres.treebase.dao.admin.PersonDAOTest.testFindCompleteEmailAddress(PersonDAOTest.java:210)
	at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:498)
	at junit.framework.TestCase.runTest(TestCase.java:154)
	at junit.framework.TestCase.runBare(TestCase.java:127)
	at org.springframework.test.ConditionalTestCase.runBare(ConditionalTestCase.java:69)
	at junit.framework.TestResult$1.protect(TestResult.java:106)
	at junit.framework.TestResult.runProtected(TestResult.java:124)
	at junit.framework.TestResult.run(TestResult.java:109)
	at junit.framework.TestCase.run(TestCase.java:118)
	at junit.framework.TestSuite.runTest(TestSuite.java:208)
	at junit.framework.TestSuite.run(TestSuite.java:203)
	at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:498)
	at org.apache.maven.surefire.junit.JUnitTestSetExecutor.execute(JUnitTestSetExecutor.java:81)
	at org.apache.maven.surefire.junit.JUnit3Provider.executeTestSet(JUnit3Provider.java:131)
	at org.apache.maven.surefire.junit.JUnit3Provider.invoke(JUnit3Provider.java:93)
	at org.apache.maven.surefire.booter.ForkedBooter.runSuitesInProcess(ForkedBooter.java:385)
	at org.apache.maven.surefire.booter.ForkedBooter.execute(ForkedBooter.java:162)
	at org.apache.maven.surefire.booter.ForkedBooter.run(ForkedBooter.java:507)
	at org.apache.maven.surefire.booter.ForkedBooter.main(ForkedBooter.java:495)

Check failure on line 103 in treebase-core/src/main/java/org/cipres/treebase/dao/admin/PersonDAO.java

See this annotation in the file changed.

@github-actions github-actions / JUnit Test Results

org.cipres.treebase.dao.admin.PersonDAOTest ► testFindDuplicateWithFirstAndLastNames 

Failed test found in:
  treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.admin.PersonDAOTest.xml
Error:
  org.hibernate.exception.SQLGrammarException: could not execute query
Raw output 
org.hibernate.exception.SQLGrammarException: could not execute query
	at org.hibernate.exception.SQLStateConverter.convert(SQLStateConverter.java:67)
	at org.hibernate.exception.JDBCExceptionHelper.convert(JDBCExceptionHelper.java:43)
	at org.hibernate.loader.Loader.doList(Loader.java:2216)
	at org.hibernate.loader.Loader.listIgnoreQueryCache(Loader.java:2104)
	at org.hibernate.loader.Loader.list(Loader.java:2099)
	at org.hibernate.loader.hql.QueryLoader.list(QueryLoader.java:378)
	at org.hibernate.hql.ast.QueryTranslatorImpl.list(QueryTranslatorImpl.java:338)
	at org.hibernate.engine.query.HQLQueryPlan.performList(HQLQueryPlan.java:172)
	at org.hibernate.impl.SessionImpl.list(SessionImpl.java:1121)
	at org.hibernate.impl.QueryImpl.list(QueryImpl.java:79)
	at org.cipres.treebase.dao.admin.PersonDAO.findDuplicateWithFirstAndLastNames(PersonDAO.java:103)
	at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:498)
	at org.springframework.aop.support.AopUtils.invokeJoinpointUsingReflection(AopUtils.java:304)
	at org.springframework.aop.framework.ReflectiveMethodInvocation.invokeJoinpoint(ReflectiveMethodInvocation.java:182)
	at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:149)
	at org.springframework.transaction.interceptor.TransactionInterceptor.invoke(TransactionInterceptor.java:106)
	at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:171)
	at org.springframework.aop.framework.JdkDynamicAopProxy.invoke(JdkDynamicAopProxy.java:204)
	at com.sun.proxy.$Proxy50.findDuplicateWithFirstAndLastNames(Unknown Source)
	at org.cipres.treebase.dao.admin.PersonDAOTest.testFindDuplicateWithFirstAndLastNames(PersonDAOTest.java:247)
	at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:498)
	at junit.framework.TestCase.runTest(TestCase.java:154)
	at junit.framework.TestCase.runBare(TestCase.java:127)
	at org.springframework.test.ConditionalTestCase.runBare(ConditionalTestCase.java:69)
	at junit.framework.TestResult$1.protect(TestResult.java:106)
	at junit.framework.TestResult.runProtected(TestResult.java:124)
	at junit.framework.TestResult.run(TestResult.java:109)
	at junit.framework.TestCase.run(TestCase.java:118)
	at junit.framework.TestSuite.runTest(TestSuite.java:208)
	at junit.framework.TestSuite.run(TestSuite.java:203)
	at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:498)
	at org.apache.maven.surefire.junit.JUnitTestSetExecutor.execute(JUnitTestSetExecutor.java:81)
	at org.apache.maven.surefire.junit.JUnit3Provider.executeTestSet(JUnit3Provider.java:131)
	at org.apache.maven.surefire.junit.JUnit3Provider.invoke(JUnit3Provider.java:93)
	at org.apache.maven.surefire.booter.ForkedBooter.runSuitesInProcess(ForkedBooter.java:385)
	at org.apache.maven.surefire.booter.ForkedBooter.execute(ForkedBooter.java:162)
	at org.apache.maven.surefire.booter.ForkedBooter.run(ForkedBooter.java:507)
	at org.apache.maven.surefire.booter.ForkedBooter.main(ForkedBooter.java:495)
Caused by: org.postgresql.util.PSQLException: ERROR: relation "person" does not exist
  Position: 226
	at org.postgresql.core.v3.QueryExecutorImpl.receiveErrorResponse(QueryExecutorImpl.java:2675)
	at org.postgresql.core.v3.QueryExecutorImpl.processResults(QueryExecutorImpl.java:2365)
	at org.postgresql.core.v3.QueryExecutorImpl.execute(QueryExecutorImpl.java:355)
	at org.postgresql.jdbc.PgStatement.executeInternal(PgStatement.java:490)
	at org.postgresql.jdbc.PgStatement.execute(PgStatement.java:408)
	at org.postgresql.jdbc.PgPreparedStatement.executeWithFlags(PgPreparedStatement.java:166)
	at org.postgresql.jdbc.PgPreparedStatement.executeQuery(PgPreparedStatement.java:118)
	at com.mchange.v2.c3p0.impl.NewProxyPreparedStatement.executeQuery(NewProxyPreparedStatement.java:76)
	at org.hibernate.jdbc.AbstractBatcher.getResultSet(AbstractBatcher.java:186)
	at org.hibernate.loader.Loader.getResultSet(Loader.java:1787)
	at org.hibernate.loader.Loader.doQuery(Loader.java:674)
	at org.hibernate.loader.Loader.doQueryAndInitializeNonLazyCollections(Loader.java:236)
	at org.hibernate.loader.Loader.doList(Loader.java:2213)
	... 44 more

Check failure on line 123 in treebase-core/src/main/java/org/cipres/treebase/dao/admin/PersonDAO.java

See this annotation in the file changed.

@github-actions github-actions / JUnit Test Results

org.cipres.treebase.dao.admin.PersonDAOTest ► testFindDuplicateWithLastNames 

Failed test found in:
  treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.admin.PersonDAOTest.xml
Error:
  org.hibernate.exception.SQLGrammarException: could not execute query
Raw output 
org.hibernate.exception.SQLGrammarException: could not execute query
	at org.hibernate.exception.SQLStateConverter.convert(SQLStateConverter.java:67)
	at org.hibernate.exception.JDBCExceptionHelper.convert(JDBCExceptionHelper.java:43)
	at org.hibernate.loader.Loader.doList(Loader.java:2216)
	at org.hibernate.loader.Loader.listIgnoreQueryCache(Loader.java:2104)
	at org.hibernate.loader.Loader.list(Loader.java:2099)
	at org.hibernate.loader.hql.QueryLoader.list(QueryLoader.java:378)
	at org.hibernate.hql.ast.QueryTranslatorImpl.list(QueryTranslatorImpl.java:338)
	at org.hibernate.engine.query.HQLQueryPlan.performList(HQLQueryPlan.java:172)
	at org.hibernate.impl.SessionImpl.list(SessionImpl.java:1121)
	at org.hibernate.impl.QueryImpl.list(QueryImpl.java:79)
	at org.cipres.treebase.dao.admin.PersonDAO.findDuplicateWithLastNames(PersonDAO.java:123)
	at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:498)
	at org.springframework.aop.support.AopUtils.invokeJoinpointUsingReflection(AopUtils.java:304)
	at org.springframework.aop.framework.ReflectiveMethodInvocation.invokeJoinpoint(ReflectiveMethodInvocation.java:182)
	at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:149)
	at org.springframework.transaction.interceptor.TransactionInterceptor.invoke(TransactionInterceptor.java:106)
	at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:171)
	at org.springframework.aop.framework.JdkDynamicAopProxy.invoke(JdkDynamicAopProxy.java:204)
	at com.sun.proxy.$Proxy50.findDuplicateWithLastNames(Unknown Source)
	at org.cipres.treebase.dao.admin.PersonDAOTest.testFindDuplicateWithLastNames(PersonDAOTest.java:273)
	at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:498)
	at junit.framework.TestCase.runTest(TestCase.java:154)
	at junit.framework.TestCase.runBare(TestCase.java:127)
	at org.springframework.test.ConditionalTestCase.runBare(ConditionalTestCase.java:69)
	at junit.framework.TestResult$1.protect(TestResult.java:106)
	at junit.framework.TestResult.runProtected(TestResult.java:124)
	at junit.framework.TestResult.run(TestResult.java:109)
	at junit.framework.TestCase.run(TestCase.java:118)
	at junit.framework.TestSuite.runTest(TestSuite.java:208)
	at junit.framework.TestSuite.run(TestSuite.java:203)
	at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:498)
	at org.apache.maven.surefire.junit.JUnitTestSetExecutor.execute(JUnitTestSetExecutor.java:81)
	at org.apache.maven.surefire.junit.JUnit3Provider.executeTestSet(JUnit3Provider.java:131)
	at org.apache.maven.surefire.junit.JUnit3Provider.invoke(JUnit3Provider.java:93)
	at org.apache.maven.surefire.booter.ForkedBooter.runSuitesInProcess(ForkedBooter.java:385)
	at org.apache.maven.surefire.booter.ForkedBooter.execute(ForkedBooter.java:162)
	at org.apache.maven.surefire.booter.ForkedBooter.run(ForkedBooter.java:507)
	at org.apache.maven.surefire.booter.ForkedBooter.main(ForkedBooter.java:495)
Caused by: org.postgresql.util.PSQLException: ERROR: relation "person" does not exist
  Position: 226
	at org.postgresql.core.v3.QueryExecutorImpl.receiveErrorResponse(QueryExecutorImpl.java:2675)
	at org.postgresql.core.v3.QueryExecutorImpl.processResults(QueryExecutorImpl.java:2365)
	at org.postgresql.core.v3.QueryExecutorImpl.execute(QueryExecutorImpl.java:355)
	at org.postgresql.jdbc.PgStatement.executeInternal(PgStatement.java:490)
	at org.postgresql.jdbc.PgStatement.execute(PgStatement.java:408)
	at org.postgresql.jdbc.PgPreparedStatement.executeWithFlags(PgPreparedStatement.java:166)
	at org.postgresql.jdbc.PgPreparedStatement.executeQuery(PgPreparedStatement.java:118)
	at com.mchange.v2.c3p0.impl.NewProxyPreparedStatement.executeQuery(NewProxyPreparedStatement.java:76)
	at org.hibernate.jdbc.AbstractBatcher.getResultSet(AbstractBatcher.java:186)
	at org.hibernate.loader.Loader.getResultSet(Loader.java:1787)
	at org.hibernate.loader.Loader.doQuery(Loader.java:674)
	at org.hibernate.loader.Loader.doQueryAndInitializeNonLazyCollections(Loader.java:236)
	at org.hibernate.loader.Loader.doList(Loader.java:2213)
	... 44 more

Check failure on line 133 in treebase-core/src/test/java/org/cipres/treebase/dao/admin/UserDAOTest.java

See this annotation in the file changed.

@github-actions github-actions / JUnit Test Results

org.cipres.treebase.dao.admin.UserDAOTest ► testDelete_Negative 

Failed test found in:
  treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.admin.UserDAOTest.xml
Error:
  org.springframework.jdbc.BadSqlGrammarException:
Raw output 
org.springframework.jdbc.BadSqlGrammarException: 
StatementCallback; bad SQL grammar [select count(*) from public.user where username='delete_negative test 0.9537393495033412']; nested exception is org.postgresql.util.PSQLException: ERROR: relation "public.user" does not exist
  Position: 22
Caused by: org.postgresql.util.PSQLException: ERROR: relation "public.user" does not exist
  Position: 22
	at org.postgresql.core.v3.QueryExecutorImpl.receiveErrorResponse(QueryExecutorImpl.java:2675)
	at org.postgresql.core.v3.QueryExecutorImpl.processResults(QueryExecutorImpl.java:2365)
	at org.postgresql.core.v3.QueryExecutorImpl.execute(QueryExecutorImpl.java:355)
	at org.postgresql.jdbc.PgStatement.executeInternal(PgStatement.java:490)
	at org.postgresql.jdbc.PgStatement.execute(PgStatement.java:408)
	at org.postgresql.jdbc.PgStatement.executeWithFlags(PgStatement.java:329)
	at org.postgresql.jdbc.PgStatement.executeCachedSql(PgStatement.java:315)
	at org.postgresql.jdbc.PgStatement.executeWithFlags(PgStatement.java:291)
	at org.postgresql.jdbc.PgStatement.executeQuery(PgStatement.java:243)
	at com.mchange.v2.c3p0.impl.NewProxyStatement.executeQuery(NewProxyStatement.java:35)
	at org.springframework.jdbc.core.JdbcTemplate$1QueryStatementCallback.doInStatement(JdbcTemplate.java:390)
	at org.springframework.jdbc.core.JdbcTemplate.execute(JdbcTemplate.java:343)
	at org.springframework.jdbc.core.JdbcTemplate.query(JdbcTemplate.java:405)
	at org.springframework.jdbc.core.JdbcTemplate.query(JdbcTemplate.java:413)
	at org.springframework.jdbc.core.JdbcTemplate.queryForObject(JdbcTemplate.java:421)
	at org.springframework.jdbc.core.JdbcTemplate.queryForObject(JdbcTemplate.java:426)
	at org.cipres.treebase.dao.admin.UserDAOTest.testDelete_Negative(UserDAOTest.java:133)
	at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:498)
	at junit.framework.TestCase.runTest(TestCase.java:154)
	at junit.framework.TestCase.runBare(TestCase.java:127)
	at org.springframework.test.ConditionalTestCase.runBare(ConditionalTestCase.java:69)
	at junit.framework.TestResult$1.protect(TestResult.java:106)
	at junit.framework.TestResult.runProtected(TestResult.java:124)
	at junit.framework.TestResult.run(TestResult.java:109)
	at junit.framework.TestCase.run(TestCase.java:118)
	at junit.framework.TestSuite.runTest(TestSuite.java:208)
	at junit.framework.TestSuite.run(TestSuite.java:203)
	at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:498)
	at org.apache.maven.surefire.junit.JUnitTestSetExecutor.execute(JUnitTestSetExecutor.java:81)
	at org.apache.maven.surefire.junit.JUnit3Provider.executeTestSet(JUnit3Provider.java:131)
	at org.apache.maven.surefire.junit.JUnit3Provider.invoke(JUnit3Provider.java:93)
	at org.apache.maven.surefire.booter.ForkedBooter.runSuitesInProcess(ForkedBooter.java:385)
	at org.apache.maven.surefire.booter.ForkedBooter.execute(ForkedBooter.java:162)
	at org.apache.maven.surefire.booter.ForkedBooter.run(ForkedBooter.java:507)
	at org.apache.maven.surefire.booter.ForkedBooter.main(ForkedBooter.java:495)

Check failure on line 153 in treebase-core/src/test/java/org/cipres/treebase/dao/admin/UserDAOTest.java

See this annotation in the file changed.

@github-actions github-actions / JUnit Test Results

org.cipres.treebase.dao.admin.UserDAOTest ► testFindByUserName 

Failed test found in:
  treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.admin.UserDAOTest.xml
Error:
  org.springframework.jdbc.BadSqlGrammarException:
Raw output 
org.springframework.jdbc.BadSqlGrammarException: 
StatementCallback; bad SQL grammar [select username from public.user]; nested exception is org.postgresql.util.PSQLException: ERROR: relation "public.user" does not exist
  Position: 22
Caused by: org.postgresql.util.PSQLException: ERROR: relation "public.user" does not exist
  Position: 22
	at org.postgresql.core.v3.QueryExecutorImpl.receiveErrorResponse(QueryExecutorImpl.java:2675)
	at org.postgresql.core.v3.QueryExecutorImpl.processResults(QueryExecutorImpl.java:2365)
	at org.postgresql.core.v3.QueryExecutorImpl.execute(QueryExecutorImpl.java:355)
	at org.postgresql.jdbc.PgStatement.executeInternal(PgStatement.java:490)
	at org.postgresql.jdbc.PgStatement.execute(PgStatement.java:408)
	at org.postgresql.jdbc.PgStatement.executeWithFlags(PgStatement.java:329)
	at org.postgresql.jdbc.PgStatement.executeCachedSql(PgStatement.java:315)
	at org.postgresql.jdbc.PgStatement.executeWithFlags(PgStatement.java:291)
	at org.postgresql.jdbc.PgStatement.executeQuery(PgStatement.java:243)
	at com.mchange.v2.c3p0.impl.NewProxyStatement.executeQuery(NewProxyStatement.java:35)
	at org.springframework.jdbc.core.JdbcTemplate$1QueryStatementCallback.doInStatement(JdbcTemplate.java:390)
	at org.springframework.jdbc.core.JdbcTemplate.execute(JdbcTemplate.java:343)
	at org.springframework.jdbc.core.JdbcTemplate.query(JdbcTemplate.java:405)
	at org.springframework.jdbc.core.JdbcTemplate.query(JdbcTemplate.java:413)
	at org.springframework.jdbc.core.JdbcTemplate.queryForList(JdbcTemplate.java:440)
	at org.cipres.treebase.dao.admin.UserDAOTest.testFindByUserName(UserDAOTest.java:153)
	at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:498)
	at junit.framework.TestCase.runTest(TestCase.java:154)
	at junit.framework.TestCase.runBare(TestCase.java:127)
	at org.springframework.test.ConditionalTestCase.runBare(ConditionalTestCase.java:69)
	at junit.framework.TestResult$1.protect(TestResult.java:106)
	at junit.framework.TestResult.runProtected(TestResult.java:124)
	at junit.framework.TestResult.run(TestResult.java:109)
	at junit.framework.TestCase.run(TestCase.java:118)
	at junit.framework.TestSuite.runTest(TestSuite.java:208)
	at junit.framework.TestSuite.run(TestSuite.java:203)
	at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:498)
	at org.apache.maven.surefire.junit.JUnitTestSetExecutor.execute(JUnitTestSetExecutor.java:81)
	at org.apache.maven.surefire.junit.JUnit3Provider.executeTestSet(JUnit3Provider.java:131)
	at org.apache.maven.surefire.junit.JUnit3Provider.invoke(JUnit3Provider.java:93)
	at org.apache.maven.surefire.booter.ForkedBooter.runSuitesInProcess(ForkedBooter.java:385)
	at org.apache.maven.surefire.booter.ForkedBooter.execute(ForkedBooter.java:162)
	at org.apache.maven.surefire.booter.ForkedBooter.run(ForkedBooter.java:507)
	at org.apache.maven.surefire.booter.ForkedBooter.main(ForkedBooter.java:495)

Check failure on line 188 in treebase-core/src/main/java/org/cipres/treebase/dao/admin/UserDAO.java

See this annotation in the file changed.

@github-actions github-actions / JUnit Test Results

org.cipres.treebase.dao.admin.UserDAOTest ► testFindByUserRole 

Failed test found in:
  treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.admin.UserDAOTest.xml
Error:
  org.springframework.dao.InvalidDataAccessResourceUsageException: could not execute query; nested exception is org.hibernate.exception.SQLGrammarException: could not execute query
Raw output 
org.springframework.dao.InvalidDataAccessResourceUsageException: could not execute query; nested exception is org.hibernate.exception.SQLGrammarException: could not execute query
Caused by: org.hibernate.exception.SQLGrammarException: could not execute query
	at org.hibernate.exception.SQLStateConverter.convert(SQLStateConverter.java:67)
	at org.hibernate.exception.JDBCExceptionHelper.convert(JDBCExceptionHelper.java:43)
	at org.hibernate.loader.Loader.doList(Loader.java:2216)
	at org.hibernate.loader.Loader.listIgnoreQueryCache(Loader.java:2104)
	at org.hibernate.loader.Loader.list(Loader.java:2099)
	at org.hibernate.loader.hql.QueryLoader.list(QueryLoader.java:378)
	at org.hibernate.hql.ast.QueryTranslatorImpl.list(QueryTranslatorImpl.java:338)
	at org.hibernate.engine.query.HQLQueryPlan.performList(HQLQueryPlan.java:172)
	at org.hibernate.impl.SessionImpl.list(SessionImpl.java:1121)
	at org.hibernate.impl.QueryImpl.list(QueryImpl.java:79)
	at org.springframework.orm.hibernate3.HibernateTemplate$30.doInHibernate(HibernateTemplate.java:875)
	at org.springframework.orm.hibernate3.HibernateTemplate.execute(HibernateTemplate.java:372)
	at org.springframework.orm.hibernate3.HibernateTemplate.findByNamedParam(HibernateTemplate.java:866)
	at org.springframework.orm.hibernate3.HibernateTemplate.findByNamedParam(HibernateTemplate.java:857)
	at org.cipres.treebase.dao.admin.UserDAO.findbyUserRole(UserDAO.java:188)
	at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:498)
	at org.springframework.aop.support.AopUtils.invokeJoinpointUsingReflection(AopUtils.java:304)
	at org.springframework.aop.framework.ReflectiveMethodInvocation.invokeJoinpoint(ReflectiveMethodInvocation.java:182)
	at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:149)
	at org.springframework.transaction.interceptor.TransactionInterceptor.invoke(TransactionInterceptor.java:106)
	at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:171)
	at org.springframework.aop.framework.JdkDynamicAopProxy.invoke(JdkDynamicAopProxy.java:204)
	at com.sun.proxy.$Proxy52.findbyUserRole(Unknown Source)
	at org.cipres.treebase.dao.admin.UserDAOTest.testFindByUserRole(UserDAOTest.java:190)
	at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:498)
	at junit.framework.TestCase.runTest(TestCase.java:154)
	at junit.framework.TestCase.runBare(TestCase.java:127)
	at org.springframework.test.ConditionalTestCase.runBare(ConditionalTestCase.java:69)
	at junit.framework.TestResult$1.protect(TestResult.java:106)
	at junit.framework.TestResult.runProtected(TestResult.java:124)
	at junit.framework.TestResult.run(TestResult.java:109)
	at junit.framework.TestCase.run(TestCase.java:118)
	at junit.framework.TestSuite.runTest(TestSuite.java:208)
	at junit.framework.TestSuite.run(TestSuite.java:203)
	at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:498)
	at org.apache.maven.surefire.junit.JUnitTestSetExecutor.execute(JUnitTestSetExecutor.java:81)
	at org.apache.maven.surefire.junit.JUnit3Provider.executeTestSet(JUnit3Provider.java:131)
	at org.apache.maven.surefire.junit.JUnit3Provider.invoke(JUnit3Provider.java:93)
	at org.apache.maven.surefire.booter.ForkedBooter.runSuitesInProcess(ForkedBooter.java:385)
	at org.apache.maven.surefire.booter.ForkedBooter.execute(ForkedBooter.java:162)
	at org.apache.maven.surefire.booter.ForkedBooter.run(ForkedBooter.java:507)
	at org.apache.maven.surefire.booter.ForkedBooter.main(ForkedBooter.java:495)
Caused by: org.postgresql.util.PSQLException: ERROR: relation "user" does not exist
  Position: 199
	at org.postgresql.core.v3.QueryExecutorImpl.receiveErrorResponse(QueryExecutorImpl.java:2675)
	at org.postgresql.core.v3.QueryExecutorImpl.processResults(QueryExecutorImpl.java:2365)
	at org.postgresql.core.v3.QueryExecutorImpl.execute(QueryExecutorImpl.java:355)
	at org.postgresql.jdbc.PgStatement.executeInternal(PgStatement.java:490)
	at org.postgresql.jdbc.PgStatement.execute(PgStatement.java:408)
	at org.postgresql.jdbc.PgPreparedStatement.executeWithFlags(PgPreparedStatement.java:166)
	at org.postgresql.jdbc.PgPreparedStatement.executeQuery(PgPreparedStatement.java:118)
	at com.mchange.v2.c3p0.impl.NewProxyPreparedStatement.executeQuery(NewProxyPreparedStatement.java:76)
	at org.hibernate.jdbc.AbstractBatcher.getResultSet(AbstractBatcher.java:186)
	at org.hibernate.loader.Loader.getResultSet(Loader.java:1787)
	at org.hibernate.loader.Loader.doQuery(Loader.java:674)
	at org.hibernate.loader.Loader.doQueryAndInitializeNonLazyCollections(Loader.java:236)
	at org.hibernate.loader.Loader.doList(Loader.java:2213)
	... 48 more

Check failure on line 164 in treebase-core/src/test/java/org/cipres/treebase/dao/AbstractDAOTest.java

See this annotation in the file changed.

@github-actions github-actions / JUnit Test Results

org.cipres.treebase.dao.admin.UserDAOTest ► testFindByPerson 

Failed test found in:
  treebase-core/target/surefire-reports/TEST-org.cipres.treebase.dao.admin.UserDAOTest.xml
Error:
  org.hibernate.exception.SQLGrammarException: could not execute query
Raw output 
org.hibernate.exception.SQLGrammarException: could not execute query
	at org.hibernate.exception.SQLStateConverter.convert(SQLStateConverter.java:67)
	at org.hibernate.exception.JDBCExceptionHelper.convert(JDBCExceptionHelper.java:43)
	at org.hibernate.loader.Loader.doList(Loader.java:2216)
	at org.hibernate.loader.Loader.listIgnoreQueryCache(Loader.java:2104)
	at org.hibernate.loader.Loader.list(Loader.java:2099)
	at org.hibernate.loader.criteria.CriteriaLoader.list(CriteriaLoader.java:94)
	at org.hibernate.impl.SessionImpl.list(SessionImpl.java:1569)
	at org.hibernate.impl.CriteriaImpl.list(CriteriaImpl.java:283)
	at org.cipres.treebase.dao.AbstractDAOTest.loadObject(AbstractDAOTest.java:164)
	at org.cipres.treebase.dao.admin.UserDAOTest.testFindByPerson(UserDAOTest.java:219)
	at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:498)
	at junit.framework.TestCase.runTest(TestCase.java:154)
	at junit.framework.TestCase.runBare(TestCase.java:127)
	at org.springframework.test.ConditionalTestCase.runBare(ConditionalTestCase.java:69)
	at junit.framework.TestResult$1.protect(TestResult.java:106)
	at junit.framework.TestResult.runProtected(TestResult.java:124)
	at junit.framework.TestResult.run(TestResult.java:109)
	at junit.framework.TestCase.run(TestCase.java:118)
	at junit.framework.TestSuite.runTest(TestSuite.java:208)
	at junit.framework.TestSuite.run(TestSuite.java:203)
	at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:498)
	at org.apache.maven.surefire.junit.JUnitTestSetExecutor.execute(JUnitTestSetExecutor.java:81)
	at org.apache.maven.surefire.junit.JUnit3Provider.executeTestSet(JUnit3Provider.java:131)
	at org.apache.maven.surefire.junit.JUnit3Provider.invoke(JUnit3Provider.java:93)
	at org.apache.maven.surefire.booter.ForkedBooter.runSuitesInProcess(ForkedBooter.java:385)
	at org.apache.maven.surefire.booter.ForkedBooter.execute(ForkedBooter.java:162)
	at org.apache.maven.surefire.booter.ForkedBooter.run(ForkedBooter.java:507)
	at org.apache.maven.surefire.booter.ForkedBooter.main(ForkedBooter.java:495)
Caused by: org.postgresql.util.PSQLException: ERROR: relation "user" does not exist
  Position: 549
	at org.postgresql.core.v3.QueryExecutorImpl.receiveErrorResponse(QueryExecutorImpl.java:2675)
	at org.postgresql.core.v3.QueryExecutorImpl.processResults(QueryExecutorImpl.java:2365)
	at org.postgresql.core.v3.QueryExecutorImpl.execute(QueryExecutorImpl.java:355)
	at org.postgresql.jdbc.PgStatement.executeInternal(PgStatement.java:490)
	at org.postgresql.jdbc.PgStatement.execute(PgStatement.java:408)
	at org.postgresql.jdbc.PgPreparedStatement.executeWithFlags(PgPreparedStatement.java:166)
	at org.postgresql.jdbc.PgPreparedStatement.executeQuery(PgPreparedStatement.java:118)
	at com.mchange.v2.c3p0.impl.NewProxyPreparedStatement.executeQuery(NewProxyPreparedStatement.java:76)
	at org.hibernate.jdbc.AbstractBatcher.getResultSet(AbstractBatcher.java:186)
	at org.hibernate.loader.Loader.getResultSet(Loader.java:1787)
	at org.hibernate.loader.Loader.doQuery(Loader.java:674)
	at org.hibernate.loader.Loader.doQueryAndInitializeNonLazyCollections(Loader.java:236)
	at org.hibernate.loader.Loader.doList(Loader.java:2213)
	... 31 more
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