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I think just adding a BREAK line after each chain in the PDB file will work - which is what I was suggesting - any text editor will let you do that.
BREAK is not a standard PDB feature, so no reason for COOT to add this.
Cheers - Martyn
As a workaround, I think this problem disappears if the coordinates are
read into moleman and then written out as a new file for input to CNS.
On 9/9/16, 4:53 PM, "CCP4 bulletin board on behalf of Martyn Symmons"
<[log in to unmask] on behalf of [log in to unmask]> wrote:
>I seem to recall that CNS expects a BREAK card at the end of each
>chain, could that be the problem?
>cheers
>Martyn
>Cambridge
>
>On Fri, Sep 9, 2016 at 10:35 PM, Ursula Schulze-Gahmen
><[log in to unmask]> wrote:
>> Sorry for the ccp4 unrelated question.
>>
>> I have been using CNS for refinement of a molecular replacement solution
>> that I obtained with Phenix/phaser. I had no problem running
>>generate.inp
>> with the coordinates from the molecular replacement solution. Now I am
>> trying to read coordinates from Coot into CNS/generate, and I am not
>>able to
>> get generate to accept these coordinates. I am getting the following
>>error
>> message:
>>
>> %NEXTF-ERR: EOF or ERROR encountered on input:
>>
>> ^
>> %NEXTF-ERR: EOF or ERROR encountered on input:
>>
>> ^
>> %COOR-ERR: EOF encountered:
>>
>> ^
>> %NEXTF-ERR: EOF or ERROR encountered on input:
>>
>> ^
>> %CHAIN-ERR: EOF encountered:
>>
>> ^
>> %NEXTF-ERR: EOF or ERROR encountered on input:
>>
>> Any suggestion what is wrong with my input coordinates?
>>
>> Ursula
>>
>>
>> --
>> Ursula Schulze-Gahmen, Ph.D.
>> Project Scientist
>> UC Berkeley, QB3
>> 360 Stanley Hall #3220
>> Berkeley, CA 94720-3220
>> (510) 643 9491
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