From renaud at mancala.cbio.uct.ac.za  Mon Jun 27 16:04:14 2011
From: renaud at mancala.cbio.uct.ac.za (Renaud Gaujoux)
Date: Mon, 27 Jun 2011 16:04:14 +0200
Subject: [Rd] Class not found when search in .onLoad
In-Reply-To: <52F232CF-8D74-4854-B6F5-C2CBB439FF2C@r-project.org>
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	<4E082E83.3060204@cbio.uct.ac.za>
	<A0A00B86-D685-443A-9CF2-AFBA7F260940@r-project.org>
	<4E087AD9.4010206@cbio.uct.ac.za>
	<52F232CF-8D74-4854-B6F5-C2CBB439FF2C@r-project.org>
Message-ID: <4E088DDE.7050707@cbio.uct.ac.za>

All is clear now.
Thank you for this clarification.

Cheers,
Renaud

On 27/06/2011 15:38, Simon Urbanek wrote:
> On Jun 27, 2011, at 8:43 AM, Renaud Gaujoux wrote:
>
>> On 27/06/2011 14:27, Simon Urbanek wrote:
>>> On Jun 27, 2011, at 3:17 AM, Renaud Gaujoux wrote:
>>>
>>>> On 24/06/2011 22:04, John Chambers wrote:
>>>>> Strictly speaking, that is not meaningful.  A class (like any R object) is uniquely referenced by a name *and an environment*.  The name of a package can be used to construct the environment, but your "character slot" won't identify a class reliably unless the character string has a "package" attribute.
>>>>>
>>>>> Look at class(x), for example, from an object from one of these classes.  It will have a "package" attribute identifying the package.
>>>>> The character string with the package attribute is what you should be storing in the slot (or else store the class definition---takes more space but is slightly more efficient).
>>>>>
>>>> Thank you for this clarification, I will make my factory method for the relevant class add the package attribute to the slot.
>>>> Storing the class would require recreating the object if the user makes changes in the class definition. These objects are meant to be used when developing new algorithms. In this context one expects the user to do multiple tries and modifications, and I want to ease the process, by using dynamic links to classes (a character slot) rather than static links (result of getClass).
>>>>
>>>> However, this does not explain why .onLoad does not find the class while .onAttach finds it, does it?
>>>> Is .onLoad evaluated outside the namespace environment, while .onAttach is evaluated within the namespace?
>>>>
>>> Look at the default of where - it is the top environment, not the evaluated one, and in .onLoad the namespace is not attached yet while it is in .onAttach.
>> Ok, but .onLoad is defined in the source of the package (i.e. within the package's namespace, am I correct?).
>> So from what I get from the docs (copy/pasted below), isn't the top-environment supposed to be the package's namepsace, even if the package is not yet attached, and its namepace not yet in the search path?
>>
> Not in this case, because where is the methods namespace (see the bottom of my last e-mail - where is not evaluated in environment of your package but in methods due to the default being removed by isClass). I would say this is a bug - changing isClass to the trivial
>
> isClass<- function(Class, formal=TRUE, where = topenv(parent.frame())) !is.null(getClassDef(Class, where))
>
> has the desired effect.
>
> Cheers,
> Simon
>
>
>> from ?isClass
>> " where: The environment in which to modify or remove the definition.
>> Defaults to the top-level environment of the calling function
>> (the global environment for ordinary computations, but the
>> environment or name space of a package in the source for a
>> package).
>>
>> When searching for class definitions, ?where? defines where
>> to do the search, and the default is to search from the
>> top-level environment or name space of the caller to this
>> function."
>>
>> from ?topenv
>> "?topenv? returns the first top level environment found when
>> searching ?envir? and its enclosing environments. An environment
>> is considered top level if it is the internal environment of a
>> name space, a package environment in the search path, or
>> ?.GlobalEnv?."
>>
>>> Cheers,
>>> S
>>>
>>> Possibly @John: it's a bit puzzling that isClass has a default for where yet it is entirely ignored as getClassDef is called without where. If anyone changes the default in getDeffClass() then isClass signature will be misleading - is there a practical reason for this construct? Thanks, S.
>>
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[Rd] Class not found when search in .onLoad
Renaud Gaujoux