Re: [scipion-users] localrec not present in scipion and what version of relion neede

[Juha H. <ju...@st...>]

Dear Dieter,

I just checked and Jose Miguel is right, when run localrec from Scipion,
localrec needs to have Relion 1.4 present. So when you install Scipion,
please install both. However, 1.4 is used only internally for some
functions - you can still classify, refine and reconstruct the sub-paricles
in Relion 2.0.

Please double check that you have this line in your
.config/scipion/scipion.conf file:
LOCALREC_RELION_HOME=%(EM_ROOT)s/relion-1.4

Best wishes,
Juha


On Fri, May 19, 2017 at 7:02 AM, Jose Miguel de la Rosa Trevin <
del...@gm...> wrote:

> Dear Dieter,
>
> As Juha suggested, it would be better to use branch release-1.1, which is
> going to be the next official release.
>
> Juha, correct me if I'm wrong, but I think that localrec would need Relion
> 1.4, and currently does not work with 2.0. In Scipion, both versions can
> live together. Indeed, you don't need to modify your environment, Scipion
> will do it for you when launching Relion jobs (the same for other
> packages). It is also possible to reuse package installations (if the
> version is the one used in Scipion). You just need to create a symbolic
> link in the scipion/software/em folder with the proper name
> (package-version).
>
> Cheers,
> Jose Miguel
>
>
> On Fri, May 19, 2017 at 7:31 AM, Juha Huiskonen <ju...@st...>
> wrote:
>
>> Dear Dieter
>>
>> Please update your Scipion to 1.1 beta (balbino) from github branch
>> release-1.1-fixes. Localrec is part of that version and will be in the
>> official release 1.1 when that comes out. It is also compatible with Relion
>> 2.0.
>>
>> Best wishes,
>> Juha
>>
>> On 19 May 2017, at 08:14, Dieter Blaas <die...@me...>
>> wrote:
>>
>> Dear colleagues,
>>
>>        I tried to install localrec in scipion (Scipion v1.0.1
>> (2016-06-30) Augusto) following this instruction:
>> https://github.com/OPIC-Oxford/localrec/wiki/How-to-install but 'scipion
>> --help' does not show this software and 'scipion install localrec' does
>> not find it.
>>
>> 1) how do I install localrec?
>>
>> 2) once installed will it run also by using the latest relion version
>> (i.e. relion-2.0.x, which I have as a separate and independent install)
>> or do I have to use the old relion (v-1.4) and if so, can both version
>> live side by side (for example relion-1.4 within scipion and
>> relion-2.0.5 outside scipion?
>>
>> Thanks a lot for hints,
>>
>> Dieter
>>
>>
>>
>> ------------------------------------------------------------------------
>> Dieter Blaas,
>> Max F. Perutz Laboratories
>> Medical University of Vienna,
>> Inst. Med. Biochem., Vienna Biocenter (VBC),
>> Dr. Bohr Gasse 9/3,
>> A-1030 Vienna, Austria,
>> Tel: 0043 1 4277 61630,
>> Fax: 0043 1 4277 9616,
>> e-mail: die...@me...
>> ------------------------------------------------------------------------
>>
>>
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