[phenixbb] Phenix composite omit map

[Chen Zhao]

Dear all,

Thank you all for your help and the program is running now. However, I met
a AttributeError as " 'twin_model_manager' object has no attribute
'f_model_scaled_with_k1' ".  Sorry for so many problems.

Thank you so much,
Chen


On Mon, Apr 21, 2014 at 1:13 PM, Chen Zhao <c.zhao at yale.edu> wrote:

> Dear Engin,
>
> Thank you so much for your reply! Yes, this is the problem because I am
> using phenix-1.8.4-1496. I will download the newest version!
>
> Best,
> Chen
>
>
> On Mon, Apr 21, 2014 at 1:10 PM, Engin Özkan <eozkan at uchicago.edu> wrote:
>
>>  Dear Chen,
>>
>> What version of Phenix are you using? phenix.composite_omit_map was
>> recently added (post 1.8.4 release). Are you using a recent nightly
>> (presumably dev-1579 as you suggest or even newer, like the release
>> candidate for 1.9)?
>>
>> Engin
>>
>>
>> On 4/21/14, 12:05 PM, Chen Zhao wrote:
>>
>>  Thank you Tom,
>>
>> I understand what "command not found" mean, but I already sourced
>> "phenix_env" in my bashrc. "phenix.list" works, also I have already run
>> "phenix.autosol", "phenix.autobuild", "phenix.refine" without any problems.
>>
>>  Thank you so much again!
>>
>>  Sincerely,
>> Chen
>>
>>
>> On Mon, Apr 21, 2014 at 1:01 PM, Terwilliger, Thomas C <
>> terwilliger at lanl.gov> wrote:
>>
>>>  Hi Chen,
>>>
>>>  "command not found" usually means the shell cannot find a particular
>>> command.  It often can be fixed by sourcing the right setup commands.
>>>
>>>  If you type:
>>>
>>>    phenix.list
>>>
>>>  does it also say "command not found"?  If so, you just need to source
>>> the phenix version you want.  When you install it phenix lists where this
>>> directory is...If you are on a mac you will say something like this:
>>>
>>>
>>>   source /Applications/PHENIX-1.8.3-1479/Contents/phenix-1.8.3-1479/phenix_env
>>>
>>>  and you can put that in your .cshrc file too (if you are using csh).
>>>
>>>  Let me know if that doesn't do it!
>>>  All the best,
>>> Tom T
>>>
>>>
>>>
>>>
>>>  On Apr 21, 2014, at 10:53 AM, Chen Zhao wrote:
>>>
>>>    Dear all,
>>>
>>> Hello! I am now running into a simple technical problem but I just
>>> cannot figure it out. I am trying to create a composite omit map by phenix,
>>> but when I typed in the command phenix.composite_omit_map XXX.eff based
>>> on the instructions on
>>> http://www.phenix-online.org/version_docs/dev-1579/composite_omit_map.htm,
>>> I got the error message "command not found". Could anybody help me out?
>>>
>>> Thank you so much in advance!
>>>
>>>  Sincerely,
>>> Chen
>>>
>>>
>>>
>>
>>
>> _______________________________________________
>> phenixbb mailing listphenixbb at phenix-online.orghttp://phenix-online.org/mailman/listinfo/phenixbb
>>
>>
>> --
>> Assistant Professor
>> Dept of Biochemistry and Molecular Biology
>> University of Chicago
>>
>>
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>>
>
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