inputPrefix for ABF

From: Branko (
Date: Sat Oct 20 2012 - 16:36:16 CDT

Jerome, Giacomo,

I performed ABF calculations in the three windows 10+10+10 ns, in each
calculation program terminated regularly and produces .count, .grad and
.colvars.state files. Then I try to 'merge' all three ABF outputs using
'inputPrefix' keyword. Unfortunately unsuccessfully. First I try to add
this keyword in the basic NAMD configuration file under "Other Parameters':

# Other parameters
colvars on
colvarsConfig adicioni
inputPrefix name_of_the_file(s) (without extensions i.e. grad,
count, colvars,state)

but program terminated with message that 'inputPrefix' is not recognized
in this context

Them I moved this keyword to colvars configuration file, below

colvarsTrajFrequency 1
colvarsRestartFrequency 1000
analysis on
_inputPrefix name_of_the_file(s)_

all other colvar parameters exist in this file, and were the same as for
three calculations

Program then terminated after initiation of the Collective variables
with message 'Error: keyword "inputprefix" is not supported, or not
recognized in this context'

Please let me know where I should put this keyword and how (exactly)
list of strings should looks, if I have three ABF outputs with names:

abfoutput_1, abfoutput_2, abfoutput_3

I try to perform all described in NAMD2.9 for Windows, while
calculations were performed on Linux ibverbs version.
Thanks a lot


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