CYANA Command: write upl: Difference between revisions

From CYANA Wiki
Jump to navigation Jump to search
No edit summary
No edit summary
Line 1: Line 1:
''Write upper distance limit file''
== Parameters ==
== Parameters ==


; file=''filename''.upl           (required)
; file=''filename''.upl
:(required) The name of the output upper distance limit file. The default filename extension ".upl" is used unless a filename extension is given explicitly.
; sorted                         
; sorted                         
:
: Option to sort the distance restraints by the first and second atom. By default, the upper distance limits are written in the order in which they are stored in the program, e.g. the order in which they have been read from an input file.
; swapped                         
; swapped                         
: Option to output restraints that involve diastereotopic hydrogens or methyl groups after optimal swapping of the stereopartners for minimal target function value.
: Option to output restraints that involve diastereotopic hydrogens or methyl groups after optimal swapping of the stereopartners for minimal target function value.
Line 18: Line 21:
may be appended to an existing file.
may be appended to an existing file.


''Write sequence file''
 


== Parameters ==
== Parameters ==

Revision as of 22:44, 3 February 2009

Write upper distance limit file

Parameters

file=filename.upl
(required) The name of the output upper distance limit file. The default filename extension ".upl" is used unless a filename extension is given explicitly.
sorted
Option to sort the distance restraints by the first and second atom. By default, the upper distance limits are written in the order in which they are stored in the program, e.g. the order in which they have been read from an input file.
swapped
Option to output restraints that involve diastereotopic hydrogens or methyl groups after optimal swapping of the stereopartners for minimal target function value.
xplor
Option to output the file in the format of the program XPLOR instead of the standard distance restraint file format of the program CYANA.
nocomments
Option to suppress the output of comments such as the number of the peak from which the restraint originated.
append
Option to append the output to the given file. By default, an already existing output file is overwritten.

Description

Writes an upper limit distance restraint file. Optionally, the output may be appended to an existing file.


Parameters

file=filename.seq
(required) The name of the output sequence file. The filename extension ".seq" is used unless a filename extension is given explicitly.
pure
Option to write purely the residue names and residue numbers, excluding possible cis-peptide bond declarations or link statements.
append
Option to append the output to the given file. By default, an already existing output file is overwritten.

Description

Writes a file with the currently selected upper distance limits in the standard distance restraint file format of the program CYANA.

Instead of the command

write seq filename.upl

the shorthand version

write filename.upl

can be used if the default filename extension is ".upl".