Thanks a lot Nat!<div><br></div><div>I tried exactly what you suggested. Still it returned me could not find the labels. <span class="Apple-style-span" style="border-collapse: collapse; font-family: arial, sans-serif; font-size: 13px; "> I also tried labin = "FP,SIGFP" and labin="FP, SIGFP" and other possiblities with or withour space in between. They all returned me could not find the label FP, SIGFP.</span></div>
<div><span class="Apple-style-span" style="border-collapse: collapse; font-family: arial, sans-serif; font-size: 13px; "><br></span></div><div><font class="Apple-style-span" face="arial, sans-serif"><span class="Apple-style-span" style="border-collapse: collapse;">Should I give the keyword in capital letters. Or may be I should try other format input file? I do not care about anomalous signal in this data, because I will just use MR_AUTO model in phenix.phaser.</span></font></div>
<div><font class="Apple-style-span" face="arial, sans-serif"><span class="Apple-style-span" style="border-collapse: collapse;"><br></span></font></div><div><font class="Apple-style-span" face="arial, sans-serif"><span class="Apple-style-span" style="border-collapse: collapse;">Any other ideas would be greatly appreciated. Thanks again for your time.</span></font></div>
<div><font class="Apple-style-span" face="arial, sans-serif"><span class="Apple-style-span" style="border-collapse: collapse;"><br></span></font></div><div><font class="Apple-style-span" face="arial, sans-serif"><span class="Apple-style-span" style="border-collapse: collapse;">Best regards,</span></font></div>
<div><font class="Apple-style-span" face="arial, sans-serif"><span class="Apple-style-span" style="border-collapse: collapse;">GP</span></font></div><meta http-equiv="content-type" content="text/html; charset=utf-8"><div>
<br></div><div><br><br><div class="gmail_quote">On Tue, Jul 19, 2011 at 5:47 PM, Nathaniel Echols <span dir="ltr"><<a href="mailto:nechols@lbl.gov">nechols@lbl.gov</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex;">
<div><div></div><div class="h5">On Tue, Jul 19, 2011 at 3:13 AM, G P <<a href="mailto:gysubscribe@gmail.com">gysubscribe@gmail.com</a>> wrote:<br>
> I am now writing a script for phenix.phaser.<br>
> In the input file params.eff there is a keyword labin which corresponds to<br>
> the labels inside input mtz files. The important columns in my ccp4 mtz file<br>
> are FP, SIGFP.<br>
> I edit the line of labin as:<br>
> labin F=FP SIGF=SIGFP<br>
> when running the script, it returns me: Syntax error: expected "=", found<br>
> "F" (file "params.eff", line 9)<br>
> So, I changed it like:<br>
> labin=FP SIGFP<br>
> when running, it gave me the message: Sorry: Couldn't find array FP SIGP in<br>
> file<br>
> I also tried: labin="FP" or labin = "FP SIGFP" or labin="labin F=FP" and so<br>
> on. With nothing it can find the right columns.<br>
> My mtz file should be not problem, I checked with mtzdmp, the columns FP and<br>
> SIGFP were there and with phenix GUI this file works well.<br>
> Would someone know exactly how to edit this line in params.eff?<br>
<br>
</div></div>labin="FP,SIGFP"<br>
<br>
The syntax used for these parameter files is much different from the<br>
CCP4 keyword input - this was necessary for incorporating Phaser into<br>
the Phenix GUI. Among other things, we specify data labels in groups,<br>
and internally "FP,SIGFP" is a single data structure containing both<br>
the amplitudes and sigmas. FYI, unlike the CCP4 version, with<br>
phenix.phaser you can use any type of data as input, so an anomalous<br>
Scalepack file will work too. (Of course you still need to know what<br>
labels to use - someday I intend to make the setup more automatic on<br>
the command line.)<br>
<br>
-Nat<br>
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</blockquote></div><br></div>