Re: [scipion-users] problem installing scipion3

[David M. <dma...@cn...>]

Hi,

The error depicted above sounds me. I think it's raised when the xmipp
plugin version is not sync with the xmipp software version. Please, try to
remove software/em/xmipp and run 'scipion3 installb xmippSrc -j 8'


Hope it helps.

Regards,

_____
Dr. David Maluenda Niubó
(+34) 619.029.310 - dma...@ub...
Wavefront Engineering Group
Applied Physics (UB)

El mié., 28 oct. 2020 17:25, Moustafa, Ibrahim M. <ri...@ps...> escribió:

> Running "scipion3 inspect localrec" gives the following error:
>
> Scipion v3.0.5 () devel
>
>  >>> WARNING: Image library not found!
>   > Please install Xmipp to get full functionality.
> (Configuration->Plugins->scipion-em-xmipp -> expand, in Scipion plugin
> manager window)
>
>
> Plugin: localrec
>    >>> constants:  loaded
>    >>> convert:  loaded
>    >>> protocols:  loaded
>    >>> wizards:  missing
>    >>> viewers:  loaded
>    >>> tests:  error -> Traceback (most recent call last):
>   File "/usr/local/scipion/pip/scipion/install/inspect-plugins.py", line
> 74, in getSubmodule
>     m = importlib.import_module('%s.%s' % (name, subname))
>   File
> "/usr/local/miniconda/envs/.scipion3env/lib/python3.8/importlib/__init__.py",
> line 127, in import_module
>     return _bootstrap._gcd_import(name[level:], package, level)
>   File "<frozen importlib._bootstrap>", line 1014, in _gcd_import
>   File "<frozen importlib._bootstrap>", line 991, in _find_and_load
>   File "<frozen importlib._bootstrap>", line 975, in
> _find_and_load_unlocked
>   File "<frozen importlib._bootstrap>", line 671, in _load_unlocked
>   File "<frozen importlib._bootstrap_external>", line 783, in exec_module
>   File "<frozen importlib._bootstrap>", line 219, in
> _call_with_frames_removed
>   File "/usr/local/scipion/pip/localrec/tests/__init__.py", line 27, in
> <module>
> from .test_protocol_localized_reconstruction import
> (TestLocalizedReconsBase,
>   File
> "/usr/local/scipion/pip/localrec/tests/test_protocol_localized_reconstruction.py",
> line 37, in <module>
>     from xmipp3.protocols import XmippProtCreateMask3D
>   File "/usr/local/scipion/pip/xmipp3/protocols/__init__.py", line 50, in
> <module>
>     from .protocol_ctf_micrographs import XmippProtCTFMicrographs
>   File
> "/usr/local/scipion/pip/xmipp3/protocols/protocol_ctf_micrographs.py", line
> 44, in <module>
>     from xmipp3.base import isMdEmpty
> ImportError: cannot import name 'isMdEmpty' from 'xmipp3.base'
> (/usr/local/scipion/pip/xmipp3/base.py)
>
> Ibrahim
> ------------------------------
> *From:* Pablo Conesa <pc...@cn...>
> *Sent:* Wednesday, October 28, 2020 2:23 AM
> *To:* sci...@li... <
> sci...@li...>
> *Subject:* Re: [scipion-users] problem installing scipion3
>
>
> Despite the error, it seems localrec is installed.
>
> What about:
>
> ./scipion3 inspect localrec
>
>
> On 27/10/20 19:12, Moustafa, Ibrahim M. wrote:
>
> scipion-em-localrec 3.0.1
>
> --
> Pablo Conesa - *Madrid Scipion
> <https://nam01.safelinks.protection.outlook.com/?url=http%3A%2F%2Fscipion.i2pc.es%2F&data=04%7C01%7Cria2%40psu.edu%7Cbf532e8ce14541a85e1908d87b0a12e4%7C7cf48d453ddb4389a9c1c115526eb52e%7C0%7C1%7C637394630482954098%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000&sdata=W46ErzeEGkYXk8Ma7SO5lbA6cfarjSIk9uFY08lcJy8%3D&reserved=0>
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