Re: [scipion-users] Problems with scipion installation

[Bruno M. <bru...@gm...>]

Sorry Grigory, now I undestand what you were trying to say. So I changed
the scipion file and now the following message is appearing:

bruno@Matsuyama:~/Downloads/scipion$ ./scipion config

Scipion v1.1 (2017-06-14) Balbino

>>>>> python  /home/bruno/Downloads/scipion/pyworkflow/apps/pw_config.py
Traceback (most recent call last):
  File "/home/bruno/Downloads/scipion/pyworkflow/apps/pw_config.py", line
31, in <module>
    import time
ImportError: No module named time

I am just trying to configure the binaries files, in order to install
scipion.

Best Regards,

Bruno



On Thu, 28 Jun 2018 at 13:46, Gregory Sharov <sha...@gm...>
wrote:

> Hi Bruno,
>
> it does look like you still using system python
> (/usr/lib/python2.7/subprocess.py) and not the scipion one. How do you
> launch scipion?
>
> Best regards,
> Grigory
>
>
> --------------------------------------------------------------------------------
> Grigory Sharov, Ph.D.
>
> MRC Laboratory of Molecular Biology,
> Francis Crick Avenue,
> Cambridge Biomedical Campus,
> Cambridge CB2 0QH, UK.
> tel. +44 (0) 1223 267542
> e-mail: gs...@mr...
>
>
> On Thu, Jun 28, 2018 at 1:48 PM Bruno Matsuyama <bru...@gm...>
> wrote:
>
>> Hi Gregory,
>>
>> I just tried that, but didn't work. The same error message keeps
>> appearing.
>>
>> Traceback (most recent call last):
>>   File "./scipion", line 34, in <module>
>>     import subprocess
>>   File "/usr/lib/python2.7/subprocess.py", line 72, in <module>
>>     import select
>> ImportError: No module named select
>>
>> Best Regards,
>>
>> Bruno
>>
>>
>>
>> On Tue, 26 Jun 2018 at 18:48, Gregory Sharov <sha...@gm...>
>> wrote:
>>
>>> Hello Bruno,
>>>
>>> I might be wrong, but a wild guess:do you have anything sourced like
>>> eman2 which might setting its own PYTHONPATH?
>>>  Did you try to change first line in the main ./scipion file to point it
>>> to the python provided with scipion? (software/bin/python)
>>>
>>>
>>> On Tue, Jun 26, 2018, 20:01 Bruno Matsuyama <bru...@gm...>
>>> wrote:
>>>
>>>> I searched on the internet and tried some things, but still not work.
>>>> What I found is differences between how the modules are called in the
>>>> script, but I am not sure if I am worsening the situation, because I dont
>>>> have much experience with ubuntu os.
>>>>
>>>> Best Regards,
>>>>
>>>> Bruno
>>>>
>>>> On Tue, 26 Jun 2018 at 14:56, Patrick Goetz <pg...@ma...>
>>>> wrote:
>>>>
>>>>> The default python on Ubuntu 18.04 seems to still be 2.7:
>>>>>
>>>>> cnsit@rossmann:/usr/bin$ cat /etc/lsb-release
>>>>> DISTRIB_ID=Ubuntu
>>>>> DISTRIB_RELEASE=18.04
>>>>> DISTRIB_CODENAME=bionic
>>>>> DISTRIB_DESCRIPTION="Ubuntu 18.04 LTS"
>>>>> cnsit@rossmann:/usr/bin$ ls -l python
>>>>> lrwxrwxrwx 1 root root 9 May  8 12:15 python -> python2.7
>>>>>
>>>>>
>>>>> On 06/25/2018 05:44 PM, Jose Miguel de la Rosa Trevin wrote:
>>>>> > Hi Bruno,
>>>>> >
>>>>> > Maybe Ubuntu 18 comes with Python 3 by default? Although we have
>>>>> tested
>>>>> > the install with it.
>>>>> > Did you search about this error in Ubuntu? Just in case could give
>>>>> us
>>>>> > some hint.
>>>>> >
>>>>> > Best,
>>>>> > Jose Miguel
>>>>> >
>>>>> >
>>>>> > On Mon, Jun 25, 2018 at 10:04 PM Bruno Matsuyama
>>>>> > <bru...@gm... <mailto:bru...@gm...>> wrote:
>>>>> >
>>>>> >     Hello,
>>>>> >
>>>>> >     I'm having some trouble to install scipion  and I hope that
>>>>> somebody
>>>>> >     here can help me. I'm using Ubuntu 18.04, and after installing
>>>>> the
>>>>> >     dependencies, when I tried to generate the configuration files, I
>>>>> >     get the following message:
>>>>> >
>>>>> >       ./scipion config
>>>>> >
>>>>> >     Traceback (most recent call last):
>>>>> >        File "./scipion", line 34, in <module>
>>>>> >          import subprocess
>>>>> >        File "/usr/lib/python2.7/subprocess.py", line 72, in <module>
>>>>> >          import select
>>>>> >     ImportError: No module named select
>>>>> >
>>>>> >     Did someone had the same error or know how to fix it ?
>>>>> >
>>>>> >     Best Regards,
>>>>> >
>>>>> >     Bruno
>>>>> >
>>>>> >
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