Dear Sam,
The version of Phaser distributed with CCP4 version 7 should accept intensities as input, which is why the interface has chosen the I and SIGI columns from your input MTZ file. It looks like there is an old version of Phaser in your path, and that one is being used.
You can open a terminal window and, at least in Unix, type “which phaser”. That will tell you where the first version of phaser in your path is found, and then you can investigate why in your setup files (e.g. .cshrc or .bashrc or .login, etc., depending on your shell and how you’ve set things up) the wrong one is being put into the $PATH variable.
I hope that helps!
Best wishes,
Randy Read
-----
Randy J. Read
Department of Haematology, University of Cambridge
Cambridge Institute for Medical Research Tel: +44 1223 336500
Wellcome Trust/MRC Building Fax: +44 1223 336827
Hills Road E-mail: [log in to unmask]
Cambridge CB2 0XY, U.K. www-structmed.cimr.cam.ac.uk
> On 11 Apr 2016, at 06:42, Sam Tang <[log in to unmask]> wrote:
>
> Hi all
>
> It's my first time raising a question here. My apologies if this is not a right place to mail to. My question is as follows:
>
> I recently updated my CCP4i to 7.0.006 from an older (6.0.2) Windows version. This being done, I fail to run PhaserMR anymore with the below warning:
>
> #---PHASER COMMAND SCRIPT GENERATED BY CCP4I---
> TITLE [No title given]
> ROOT "C:/Users/"
> #---DEFINE DATA---
> HKLIN "C:/Users/ctruncate_B13_1_170_fixcell.mtz"
> LABIN I
>
> <B><FONT COLOR="#FF8800">
> $TEXT:Warning: $$ Baubles Markup $$
> -------------------------------------------------------------------------------------
> SYNTAX ERROR: Use F or SIGF
> -------------------------------------------------------------------------------------
> $$
>
>
> --------------------
> EXIT STATUS: FAILURE
>
> Nevertheless, when I use the same input mtz and model and same parameters in Phenix it runs OK. I am concerned if there is anything wrong with the source script during update.
>
> Does anyone experience similar thing? Where can I check if the source script is fine?
>
> Thanks.
>
> Sam Tang
> PhD candidate
> Biochemistry Programme, School of Life Sciences, CUHK
>
|