This is a huge commit, applying indentation to the whole
code. Notice that this commit is made on master branch
after having merged with -s ours from branch v2.3

See #215

This is a huge commit, applying indentation to the whole
code.

See #215

In case of error with LOAD, the code was returning an error without
raising an exception.

This is done only in the cmd interpreter

This should make the code slightly fast.

fixes #211

[makedoc]

These are the files generated automatically with the cmd
dictionaries. I renamed them to inc which is a more standard
extension for include files.

that is used to flush all the actions
[ makedoc ]

Now works also when plumed has been installed with a different name

added local masses

No EOL at the end of the file is only tolerated in input file
(e.g. plumed.dat) and not in other files (including HILLS files).

Indeed, when using multiple walkers, it is possible that transiently
the HILLS file from other walkers have incomplete lines.
With this fix, those lines are ignored and read at the next iteration.

This fixes #190

this is usually not important, but for the case (like with
metainference) in which you have a bias that is applied on
a large number of arguments, then it was getting very slow

Now multi words commands are parsed like single word ones.
This will make it easy to automatize documentation.

Related to #182

this is usually not important, but for the case (like with
metainference) in which you have a bias that is applied on
a large number of arguments, then it was getting very slow

Since the pointer should be not null, the new name makes more sense

Defining a capitalized enum was useless in the end. I now use
cmd_string
as the name of the enum, where string is the string for the
cmd interpreter

map is now a global static object

Enum list and word map are now generated with a script.

To add a new command it is sufficient to add a case command as:

case PIPPO: // cmd pippo

It is related to #182, though I let the issue open since I think
we should automatize also the cmd documentation.

Allow for splitting of performCalc() into
performCalcNoUpdate() and update()

This makes it possible to call performCalc() multiple times per step

Before this fix, using cmd() with an erroneous string was triggering
no error. Now this is fixed.

Notice that this is an old bug (introduced in 0a46f15d).
It should be harmless when using MD codes with proper interfaces,
but could be very dangerous if there is a typo in a cmd string.

Before this fix, using cmd() with an erroneous string was triggering
no error. Now this is fixed.

Notice that this is an old bug (introduced in 0a46f15d).
It should be harmless when using MD codes with proper interfaces.

Allows to feed plumed with a single input line directly
from the MD code.

[makedoc]