[scipion-users] Error with reliontomo tests

[Hoover, D. (NIH/C. [E] <hoo...@hp...>]

Hi,

I've managed to install scipion3 (3.0.7) and am trying to run tests.  The reliontomo test doesn't seem to work at all:

================================================================================================================

$ scipion3 tests --show

...
>>>> reliontomo
Error loading the test. Please, run the test for more information: reliontomo.tests.test_workflow_reliontomo
...

$ scipion3 tests reliontomo.tests.test_workflow_reliontomo
Scipion v3.0.7 - Eugenius
Running tests....
WARNING FOR DEVELOPERS:  phenix/bibtex._bibtex unnecessarily declared. Just the doc string is enough.
[   FAILED ] _FailedTest.test_workflow_reliontomo

Traceback (most recent call last):
   File "/usr/local/apps/scipion/3.0.7/anaconda/envs/scipion3/lib/python3.8/unittest/case.py", line 60, in testPartExecutor
     yield
   File "/usr/local/apps/scipion/3.0.7/anaconda/envs/scipion3/lib/python3.8/unittest/case.py", line 676, in run
     self._callTestMethod(testMethod)
   File "/usr/local/apps/scipion/3.0.7/anaconda/envs/scipion3/lib/python3.8/unittest/case.py", line 633, in _callTestMethod
     method()
   File "/usr/local/apps/scipion/3.0.7/anaconda/envs/scipion3/lib/python3.8/unittest/loader.py", line 34, in testFailure
     raise self._exception
ImportError: Failed to import test module: test_workflow_reliontomo
Traceback (most recent call last):
   File "/usr/local/apps/scipion/3.0.7/anaconda/envs/scipion3/lib/python3.8/unittest/loader.py", line 154, in loadTestsFromName
     module = __import__(module_name)
   File "/usr/local/apps/scipion/3.0.7/anaconda/envs/scipion3/lib/python3.8/site-packages/reliontomo/tests/test_workflow_reliontomo.py", line 35, in <module>
     from reliontomo.protocols.protocol_ctf_3d_estimation import CTF3D_PER_SUBVOLUME
   File "/usr/local/apps/scipion/3.0.7/anaconda/envs/scipion3/lib/python3.8/site-packages/reliontomo/protocols/__init__.py", line 28, in <module>
     from .protocol_refine_3d_tomo import ProtRelionSubtomoRefine3D
   File "/usr/local/apps/scipion/3.0.7/anaconda/envs/scipion3/lib/python3.8/site-packages/reliontomo/protocols/protocol_refine_3d_tomo.py", line 34, in <module>
     from relion.convert import Table, pwem, convert31
ImportError: cannot import name 'pwem' from 'relion.convert' (/usr/local/apps/scipion/3.0.7/anaconda/envs/scipion3/lib/python3.8/site-packages/relion/convert/__init__.py)


[==========] run 1 tests (0.001 secs)
[  FAILED  ] 1 tests
[  PASSED  ] 0 tests

================================================================================================================

Is there something I am missing?

David
-- 
David Hoover, Ph.D.
Computational Biologist
High Performance Computing Services,
Center for Information Technology,
National Institutes of Health
12 South Dr., Rm 2N207
Bethesda, MD 20892, USA
TEL: (+1) 301-435-2986
Email: hoo...@hp...