cnr-ibba /
IMAGE-InjectTool
| @@ 736-831 (lines=96) @@ | ||
| 733 | 'animal_issues': 0, 'sample_issues': 0}, |
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| 734 | pk=1) |
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| 735 | ||
| 736 | @patch("validation.tasks.MetaDataValidation.check_usi_structure") |
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| 737 | @patch("validation.tasks.MetaDataValidation.validate") |
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| 738 | def test_validate_submission_errors( |
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| 739 | self, my_validate, my_check): |
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| 740 | """A submission with errors is a NEED_REVISION submission""" |
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| 741 | ||
| 742 | # setting check_usi_structure result. now is a ValidateResultRecord |
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| 743 | result = PickableMock() |
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| 744 | result.get_overall_status.return_value = "Pass" |
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| 745 | result.get_messages.return_value = [] |
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| 746 | my_check.return_value = result |
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| 747 | ||
| 748 | # setting a return value for check_with_ruleset |
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| 749 | result1 = ValidationResultRecord("animal_1") |
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| 750 | result1.add_validation_result_column( |
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| 751 | ValidationResultColumn( |
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| 752 | "warning", |
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| 753 | "warn message", |
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| 754 | "animal_1", |
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| 755 | "warn column") |
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| 756 | ) |
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| 757 | ||
| 758 | result2 = ValidationResultRecord("animal_2") |
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| 759 | result2.add_validation_result_column( |
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| 760 | ValidationResultColumn( |
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| 761 | "pass", |
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| 762 | "a message", |
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| 763 | "animal_2", |
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| 764 | "") |
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| 765 | ) |
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| 766 | ||
| 767 | result3 = ValidationResultRecord("animal_3") |
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| 768 | result3.add_validation_result_column( |
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| 769 | ValidationResultColumn( |
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| 770 | "pass", |
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| 771 | "a message", |
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| 772 | "animal_3", |
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| 773 | "") |
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| 774 | ) |
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| 775 | ||
| 776 | result4 = ValidationResultRecord("sample_1") |
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| 777 | result4.add_validation_result_column( |
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| 778 | ValidationResultColumn( |
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| 779 | "error", |
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| 780 | "error message", |
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| 781 | "sample_1", |
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| 782 | "error column") |
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| 783 | ) |
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| 784 | ||
| 785 | # add results to result set |
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| 786 | responses = [result1, result2, result3, result4] |
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| 787 | my_validate.side_effect = responses |
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| 788 | ||
| 789 | # call task |
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| 790 | res = self.my_task.run(submission_id=self.submission_id) |
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| 791 | ||
| 792 | # assert a success with validation taks |
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| 793 | self.assertEqual(res, "success") |
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| 794 | ||
| 795 | # check submission status and message |
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| 796 | self.submission.refresh_from_db() |
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| 797 | ||
| 798 | # check submission.state changed |
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| 799 | self.assertEqual(self.submission.status, NEED_REVISION) |
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| 800 | self.assertIn( |
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| 801 | "Error in metadata", |
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| 802 | self.submission.message) |
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| 803 | ||
| 804 | # check Animal (they are all ok) |
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| 805 | self.check_model_status(self.animal_qs, responses, READY) |
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| 806 | ||
| 807 | # sample has need revision |
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| 808 | self.check_model_status( |
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| 809 | self.sample_qs, |
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| 810 | responses[self.animal_qs.count():], |
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| 811 | NEED_REVISION) |
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| 812 | ||
| 813 | # test for my methods called |
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| 814 | self.assertTrue(my_check.called) |
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| 815 | self.assertTrue(my_validate.called) |
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| 816 | ||
| 817 | # asserting my mock objects |
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| 818 | self.assertTrue(self.read_in_ruleset.called) |
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| 819 | self.assertTrue(self.check_ruleset.called) |
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| 820 | self.assertFalse(self.validate_retry.called) |
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| 821 | ||
| 822 | self.check_message( |
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| 823 | message='Need Revision', |
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| 824 | notification_message=( |
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| 825 | 'Validation got errors: Error in ' |
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| 826 | 'metadata. Need revisions before submit'), |
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| 827 | validation_message={ |
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| 828 | 'animals': self.n_animals, 'samples': self.n_samples, |
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| 829 | 'animal_unkn': 0, 'sample_unkn': 0, |
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| 830 | 'animal_issues': 0, 'sample_issues': 1}, |
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| 831 | pk=1) |
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| 832 | ||
| 833 | ||
| 834 | class ValidateSubmissionStatusTest(ValidateSubmissionMixin, TestCase): |
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| @@ 641-734 (lines=94) @@ | ||
| 638 | 'sample_issues': self.n_samples}, |
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| 639 | pk=1) |
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| 640 | ||
| 641 | @patch("validation.tasks.MetaDataValidation.check_usi_structure") |
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| 642 | @patch("validation.tasks.MetaDataValidation.validate") |
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| 643 | def test_validate_submission_warnings( |
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| 644 | self, my_validate, my_check): |
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| 645 | """A submission with warnings is a READY submission""" |
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| 646 | ||
| 647 | # setting check_usi_structure result. now is a ValidateResultRecord |
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| 648 | result = PickableMock() |
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| 649 | result.get_overall_status.return_value = "Pass" |
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| 650 | result.get_messages.return_value = [] |
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| 651 | my_check.return_value = result |
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| 652 | ||
| 653 | # setting a return value for check_with_ruleset |
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| 654 | result1 = ValidationResultRecord("animal_1") |
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| 655 | result1.add_validation_result_column( |
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| 656 | ValidationResultColumn( |
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| 657 | "warning", |
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| 658 | "warn message", |
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| 659 | "animal_1", |
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| 660 | "warn column") |
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| 661 | ) |
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| 662 | ||
| 663 | result2 = ValidationResultRecord("animal_2") |
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| 664 | result2.add_validation_result_column( |
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| 665 | ValidationResultColumn( |
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| 666 | "pass", |
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| 667 | "a message", |
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| 668 | "animal_2", |
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| 669 | "") |
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| 670 | ) |
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| 671 | ||
| 672 | result3 = ValidationResultRecord("animal_3") |
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| 673 | result3.add_validation_result_column( |
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| 674 | ValidationResultColumn( |
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| 675 | "pass", |
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| 676 | "a message", |
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| 677 | "animal_3", |
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| 678 | "") |
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| 679 | ) |
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| 680 | ||
| 681 | result4 = ValidationResultRecord("sample_1") |
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| 682 | result4.add_validation_result_column( |
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| 683 | ValidationResultColumn( |
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| 684 | "pass", |
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| 685 | "a message", |
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| 686 | "sample_1", |
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| 687 | "") |
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| 688 | ) |
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| 689 | ||
| 690 | # add results to result set |
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| 691 | responses = [result1, result2, result3, result4] |
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| 692 | my_validate.side_effect = responses |
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| 693 | ||
| 694 | # call task |
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| 695 | res = self.my_task.run(submission_id=self.submission_id) |
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| 696 | ||
| 697 | # assert a success with validation taks |
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| 698 | self.assertEqual(res, "success") |
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| 699 | ||
| 700 | # check submission status and message |
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| 701 | self.submission.refresh_from_db() |
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| 702 | ||
| 703 | # check submission.state changed |
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| 704 | self.assertEqual(self.submission.status, READY) |
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| 705 | self.assertIn( |
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| 706 | "Submission validated with some warnings", |
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| 707 | self.submission.message) |
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| 708 | ||
| 709 | # check Animal (they are all ok) |
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| 710 | self.check_model_status(self.animal_qs, responses, READY) |
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| 711 | ||
| 712 | # sample has need revision |
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| 713 | self.check_model_status( |
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| 714 | self.sample_qs, |
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| 715 | responses[self.animal_qs.count():], |
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| 716 | READY) |
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| 717 | ||
| 718 | # test for my methods called |
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| 719 | self.assertTrue(my_check.called) |
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| 720 | self.assertTrue(my_validate.called) |
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| 721 | ||
| 722 | # asserting my mock objects |
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| 723 | self.assertTrue(self.read_in_ruleset.called) |
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| 724 | self.assertTrue(self.check_ruleset.called) |
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| 725 | self.assertFalse(self.validate_retry.called) |
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| 726 | ||
| 727 | self.check_message( |
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| 728 | message='Ready', |
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| 729 | notification_message='Submission validated with some warnings', |
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| 730 | validation_message={ |
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| 731 | 'animals': self.n_animals, 'samples': self.n_samples, |
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| 732 | 'animal_unkn': 0, 'sample_unkn': 0, |
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| 733 | 'animal_issues': 0, 'sample_issues': 0}, |
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| 734 | pk=1) |
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| 735 | ||
| 736 | @patch("validation.tasks.MetaDataValidation.check_usi_structure") |
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| 737 | @patch("validation.tasks.MetaDataValidation.validate") |
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