manager: Simulation throws bad trace

The command line interface throws a bad trace. We replace the
m_logoptionsshould with m_simulationoptions (closes #39).
cli: remove Glib::OptionGroup for vle

We have dependency to the boost::program_options in VLE/GVLE. We need to
replace Glib::OptionGroup with boost::program_options for the vle
command line interface (closes #40).

We restore also the config mode (closes #24).
vle: add a --restart to the command line interface

To perform a correct upgrade to VLE 1.1, the file $VLE_HOME/vle.conf
needs to be remove. We can add an --restart option. (closes #3).
cli: taking into account the manager's log options

In current source code, the command line interface does not take into
account the LogOptions of the manager or simulation class. We fix the
problem by assign log options from trace level. (closes #41).

vle -V 0 ... : LOG_NONE
vle -V [1-2] : LOG_SUMMARY
vle -V 3     : LOG_SUMMARY & LOG_RUN
cli: adding option to use vle.log or standard output

We add a `--log-file' to use the $VLE_HOME/vle.log file and `--log-stdout' to
the the standard output to log simulations output. By default, we use the
standard error output to log. (closes #42)