G'day,
This is a great improvement.
A related question. I often see code like the following
new FooTask(..., parameters.clone());
It shouldn't be necessary to clone the parameter set should it?
In fact, I think it's up to FooTask to decide how it deals with the
ParameterSet it is passed. Many take copies of individual parameter values in
the constructor for later use in their run() methods. Others copy the
ParameterSet in their constructor and then get the parameter values as they're
needed.
It's the latter case where the Task should clone() the ParameterSet isn't it
(in case during execution of the Task the user modifies the global instance of
the module's ParameterSet).
Regards,
Chris.
-----
Hi all,
I found an annoying bug in MZmine (up to last version 2.5). If you create a
batch with two steps of the same mass detector (e.g. Centroid), then the
instance of the parameter set of this mass detector is shared for both steps
and it is not possible to set different parameters to them. This bug was
probably caused by a general confusion in how many instances of ParameterSet
should exist: the MZmineModule interface had a getParameterSet() method, but
the runModule() method had another ParameterSet as its parameter. To make the
story short, I decided to fix this by changing the MZmineModule interface and
took this as an opportunity to cleanup some old code.
The MZmineModule interface now defines the modules's parameter class using this
method:
public Class<? extends ParameterSet> getParameterSetClass();
There is a new interface MZmineConfiguration that stores the global (main)
parameter set for each module.
During startup, one instance of each module's parameter set is created and
stored in the configuration class.
I moved the code for loading/saving configuration to the configuration class,
so the MZmineCore class is now a bit shorter.
Additionally, I created a new interface MZmineProcessingStep, which represents
a pair of a module and its parameter set.
For example, this is used for each step of the batch mode processing.
Please update your sources from the trunk and let me know if have any
questions/problems.
Cheers,
Tomas
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