[phenixbb] phenix.phaser params.eff labin problem
gysubscribe at gmail.com
Wed Jul 20 03:46:28 PDT 2011
Now I can make it. I just type labin="FP,SIGFP,DANO,SIGDANO". Then there is
no error to find the labels. I think because I should give all columns
But there is another problem. When I run the script, it shows me:
line 694, in __init__
line 694, in __init__
Just stop at this step. What would be the reason and how to fix it? Any idea
would be greatly appreciated.
On Tue, Jul 19, 2011 at 5:47 PM, Nathaniel Echols <nechols at lbl.gov> wrote:
> On Tue, Jul 19, 2011 at 3:13 AM, G P <gysubscribe at gmail.com> wrote:
> > I am now writing a script for phenix.phaser.
> > In the input file params.eff there is a keyword labin which corresponds
> > the labels inside input mtz files. The important columns in my ccp4 mtz
> > are FP, SIGFP.
> > I edit the line of labin as:
> > labin F=FP SIGF=SIGFP
> > when running the script, it returns me: Syntax error: expected "=", found
> > "F" (file "params.eff", line 9)
> > So, I changed it like:
> > labin=FP SIGFP
> > when running, it gave me the message: Sorry: Couldn't find array FP SIGP
> > file
> > I also tried: labin="FP" or labin = "FP SIGFP" or labin="labin F=FP" and
> > on. With nothing it can find the right columns.
> > My mtz file should be not problem, I checked with mtzdmp, the columns FP
> > SIGFP were there and with phenix GUI this file works well.
> > Would someone know exactly how to edit this line in params.eff?
> The syntax used for these parameter files is much different from the
> CCP4 keyword input - this was necessary for incorporating Phaser into
> the Phenix GUI. Among other things, we specify data labels in groups,
> and internally "FP,SIGFP" is a single data structure containing both
> the amplitudes and sigmas. FYI, unlike the CCP4 version, with
> phenix.phaser you can use any type of data as input, so an anomalous
> Scalepack file will work too. (Of course you still need to know what
> labels to use - someday I intend to make the setup more automatic on
> the command line.)
> phenixbb mailing list
> phenixbb at phenix-online.org
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