import error "from sumatra.projects import Project"

[李鹏]

Hi, 

I have met some error when I use sumatra package :

Can anyone help me ?

Thanks!

>>> from sumatra.projects import Project

Traceback (most recent call last):

  File "<stdin>", line 1, in <module>

  File "/home/peng/bio/bcbio/share/anaconda/lib/python2.7/site-packages/Sumatra-0.7.4-py2.7.egg/sumatra/rojects.py", line 47, in <module>

    from sumatra.recordstore import DefaultRecordStore

  File "/home/peng/bio/bcbio/share/anaconda/lib/python2.7/site-packages/Sumatra-0.7.4-py2.7.egg/sumatra/ecordstore/__init__.py", line 19, in <module>

    from . import serialization

  File "/home/peng/bio/bcbio/share/anaconda/lib/python2.7/site-packages/Sumatra-0.7.4-py2.7.egg/sumatra/ecordstore/serialization.py", line 13, in <module>

    from sumatra import programs, launch, datastore, versioncontrol, parameters, dependency_finder

  File "/home/peng/bio/bcbio/share/anaconda/lib/python2.7/site-packages/Sumatra-0.7.4-py2.7.egg/sumatra/arameters.py", line 215, in <module>

    class NTParameterSet(parameters.ParameterSet, ParameterSet):

AttributeError: 'module' object has no attribute 'ParameterSet'

[Maximilian Albert]

Hi,

That's odd. My guess is that the `parameters` package [1], which Sumatra depends on, is either not installed or it is an old version (or Sumatra isn't picking it up for some reason). How did you install Sumatra?

To get a bit more info debugging, can you send the output of the following (commands run from within Python)?

>>> import parameters

>>> print(parameters.__file__)

>>> print(parameters.__version__)

Thanks and best wishes,

Max

[1] https://pypi.python.org/pypi/parameters

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[李鹏]

Thanks for your reply. I have installed Sumatra via "pip install sumatra". 

That's the python command output : 

Python 2.7.11 |Continuum Analytics, Inc.| (default, Dec  6 2015, 18:08:32)

[GCC 4.4.7 20120313 (Red Hat 4.4.7-1)] on linux2

Type "help", "copyright", "credits" or "license" for more information.

Anaconda is brought to you by Continuum Analytics.

Please check out: http://continuum.io/thanks and https://anaconda.org

>>> import parameters

>>> print(parameters.__file__)

parameters/__init__.pyc

>>> print(parameters.__version__)

Traceback (most recent call last):

  File "<stdin>", line 1, in <module>

AttributeError: 'module' object has no attribute '__version__'

在 2016年4月6日星期三 UTC+8下午6:27:47，Maximilian Albert写道：

[李鹏]

I installed omics_pipe package[1,2] which depend on Sumatra. Omics_pipe have 3 lines code import suamtra:

from sumatra.projects import Project

from sumatra.projects import load_project

from sumatra.parameters import build_parameters

[1] http://omics-pipe.readthedocs.org/en/latest/index.html

[2] https://pypi.python.org/pypi/omics_pipe/1.1.3

在 2016年4月6日星期三 UTC+8下午6:27:47，Maximilian Albert写道：

Hi,

>>> import parameters

>>> print(parameters.__file__)

>>> print(parameters.__version__)

Thanks and best wishes,

[Andrew Davison]

Hi,

It certainly seems as though you have the wrong "parameters" module. Please take a look at `parameters/__init__.py` and compare it to this file: https://github.com/NeuralEnsemble/parameters/blob/master/parameters/__init__.py

If they are different, try running "pip install -U parameters".

Cheers,

Andrew