Re: [scipion-users] Xmipp tests

[Carlos O. S. <co...@cn...>]

Dear Lynn,

this error is not familiar to me. Alberto will help you to find what is 
happening.

Kind regards, Carlos Oscar

El 04/11/2021 a las 15:33, Lynn Radamaker escribió:
> Dear Scipion community,
>
> I'm having some problems with Xmipp. It installed without errors, but 
> it gives a warning that it cannot find the image library. When I run 
> this test:
>
> scipion3 tests 
> pwem.tests.workflows.test_workflow_xmipp_ctf_consensus.TestCtfConsensus
>
> Then it gives me the following error message:
>
> [   FAILED ] TestCtfConsensus.test1
>
> Traceback (most recent call last):
>   File 
> "/home/ubuntu/.conda/envs/scipion3/lib/python3.8/unittest/case.py", 
> line 60, in testPartExecutor
>     yield
>   File 
> "/home/ubuntu/.conda/envs/scipion3/lib/python3.8/unittest/case.py", 
> line 676, in run
>     self._callTestMethod(testMethod)
>   File 
> "/home/ubuntu/.conda/envs/scipion3/lib/python3.8/unittest/case.py", 
> line 633, in _callTestMethod
>     method()
>   File 
> "/home/ubuntu/.conda/envs/scipion3/lib/python3.8/site-packages/pwem/tests/workflows/test_workflow_xmipp_ctf_consensus.py", 
> line 186, in test1
>     self.checkCTFs(protCTFcons3,
>   File 
> "/home/ubuntu/.conda/envs/scipion3/lib/python3.8/site-packages/pwem/tests/workflows/test_workflow_xmipp_ctf_consensus.py", 
> line 71, in checkCTFs
>     self.assertAlmostEqual(avgCTF['defocusU'], firstCTF.getDefocusU(), 
> delta=100,
>   File 
> "/home/ubuntu/.conda/envs/scipion3/lib/python3.8/unittest/case.py", 
> line 966, in assertAlmostEqual
>     raise self.failureException(msg)
> AssertionError: 24140.0898 != 24025.673242 within 100 delta 
> (114.4165580000008 difference) : DefocusU doesn't match when defocus 
> averaging.
>
> Also, the similar test:
>
> scipion3 tests pwem.tests.workflows.test_workflow_xmipp
>
> Gives the error message:
>
> [   FAILED ] TestXmippWorkflow.testXmippWorkflow
>
> Traceback (most recent call last):
>   File 
> "/home/ubuntu/.conda/envs/scipion3/lib/python3.8/unittest/case.py", 
> line 60, in testPartExecutor
>     yield
>   File 
> "/home/ubuntu/.conda/envs/scipion3/lib/python3.8/unittest/case.py", 
> line 676, in run
>     self._callTestMethod(testMethod)
>   File 
> "/home/ubuntu/.conda/envs/scipion3/lib/python3.8/unittest/case.py", 
> line 633, in _callTestMethod
>     method()
>   File 
> "/home/ubuntu/.conda/envs/scipion3/lib/python3.8/site-packages/pwem/tests/workflows/test_workflow_xmipp.py", 
> line 198, in testXmippWorkflow
> self.assertAlmostEqual(protExtractCoordsShifts.outputCoordinates.getFirstItem().getPosition(),
>   File 
> "/home/ubuntu/.conda/envs/scipion3/lib/python3.8/unittest/case.py", 
> line 943, in assertAlmostEqual
>     diff = abs(first - second)
> TypeError: unsupported operand type(s) for -: 'tuple' and 'tuple'
>
>
>
> All the other tests (basic and medium) that I ran completed without 
> problems. I'm hoping that you can give me some advice on how to fix 
> these error and get Xmipp running properly.
>
> Kind regards,
>
> Lynn Radamaker
>
>
>
>
>
>
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