Franck Varenne

The paper deals with an intellectual and historical approach to the changing meanings of the term “model” in life sciences. The author 1st tries to understand how modeling has gradually spread over life sciences then he particularly focus on the birth of mathematical modeling in this field. This quite new practice offers new insights on the old debate concerning the mathematization of life sciences. Nowadays, through computers, mathematics not only analyze or quantify but model things: what does it mean? The question turns out to be dramatic as far as digital simulation is concerned. That is the reason why he choosed to study a particular case: the history of the individual plant mathematical modeling. On this case, one may discern various epistemological standpoints that caused various reactions to the emergence of computer simulation, from the 50s to the 90s. The author shows that philosophical views often play a role in the history of sciences, especially in the choice of supposed proper mathematical formalisms. This will indicate that contemporary discourses tend to echo each other. That is the reason why he feels authorized to address the Foucault’s concept—épistémè—to denote these convergences between the scientific and the philosophical discourses. Finally, it is suggested that this épistémè gradually is changing because one can currently observe the emergence of a “graphical” thought through these simulation experiments, which tends to replace a more functionalist thought.

A recent evolution of computer simulations has led to the emergence of complex computer simulations. In particular, the need to formalize composite objects (those objects that are composed of other objects) has led to what the author suggests calling pluriformalizations, i.e. formalizations that are based on distinct sub-models which are expressed in a variety of heterogeneous symbolic languages. With the help of four case-studies, he shows that such pluriformalizations enable to formalize distinctly but simultaneously either different aspects or different parts or different scales of the same object or system. From an epistemological standpoint, he suggests that this kind of computer-aided complex formalization of composite objects renew the traditional relations between computer simulations, theoretical models and operational models.

A recent evolution of computer simulations has led to the emergence of complex computer simulations. In particular, the need to formalize composite objects (those objects that are composed of other objects) has led to what the author suggests to call pluriformalizations, i.e. formalizations that are based on distinct sub-models which are expressed in a variety of heterogeneous symbolic languages. With the help of four case-studies, he shows that such pluriformalizations enable to formalize distinctly but simultaneously either different aspects or different parts or different scales of the same object or system. From an epistemological standpoint, he suggests that this kind of computer-aided complex formalization of composite objects renew the traditional relations between computer simulations, theoretical models and operational models.

The aim of this paper is to discuss the “Framework for M&S with Agents” (FMSA) proposed by Zeigler et al. [2000, 2009] in regard to the diverse epistemological aims of agent simulations in social sciences. We first show that there surely are great similitudes, hence that the aim to emulate a universal “automated modeler agent” opens new ways of interactions between these two domains of M&S with agents. E.g., it can be shown that the multi-level conception at the core of the FMSA is similar in both contexts: notions of “levels of system specifi cation”, “behavior of models”, “simulator”and “endomorphic agents” can be partially translated in the terms linked to the “denotational hierarchy” (DH) recently introduced in a multi-level centered epistemology of M&S. Second, we suggest considering the question of “credibility” of agent M&S in social sciences when we do not try to emulate but only to simulate target systems. Whereas a stringent and standardized treatment of the heterogeneous internal relations (in the DH) between systems of formalisms is the key problem and the essential challenge in the scope of Agent M&S driven engineering, it is urgent too to address the problem of the external relations (and of the external validity, hence of the epistemic power and credibility) of such levels of formalisms in the specific domains of agent M&S in social sciences, especially when we intend to introduce the concepts of activity tracking.

Avec l'evolution recente des modeles mathematiques vers des simulations informatiques, les formalisations du vivant sont de plus en plus integratives, mixtes et, en un sens, realistes. Plus generalement, les formalisations d'objets complexes deviennent assises sur et non plus seulement traitees par l'infrastructure informatique. Quelle est la veritable portee epistemologique de cette empirie simulee? Comment la distinguer de la creativite proprement interne aux mathematiques dont la philosophie des sciences a deja su rendre compte? En se penchant sur les modeles de plantes, cette enquete historique et epistemologique montre comment une telle evolution bouleverse les epistemologies contemporaines des formalisations et des modeles (dont l'iconoclasme epistemologique si vivace au XXe siecle) en renouvelant d'une part la question des rapports entre mathematiques, calcul, langage informatique et replication, et d'autre part la question de l'integration, dans un objet formel commun, de savoirs disciplinaires distincts.

As brightly shown by Mainzer [24], the science of complexity has many distinct origins in many disciplines. Those various origins has led to “an interdisciplinary methodology to explain the emergence of certain macroscopic phenomena via the nonlinear interactions of microscopic elements” (ibid.). This paper suggests that the parallel and strong expansion of modeling and simulation - especially after the Second World War and the subsequent development of computers - is a rationale which also can be counted as an explanation of this emergence. With the benefit of hindsight, one can find three periods in the methodologies of modeling in the empirical sciences: 1st the simple modeling of the simple, 2nd the simple modeling of the complex, 3rd the complex modeling and simulation of the complex. Our main thesis is that the current spreading (since the 90’s) of complex computer simulations of systems of models (where a simulation is no more a step by step calculus of a unique logico-mathematical model) is another promising dimension of the science of complexity. Following this claim, we propose to distinguish three different types of computer simulations in the context of complex systems’ modeling. Finally, we show that these types of simulations lead to three different types of weak emergence, too.

Currently, the widely used notion of activity is increasingly present in computer science. However, because this notion is used in specific contexts, it becomes vague. Here, the notion of activity is scrutinized in various contexts and, accordingly, put in perspective. It is discussed through four scientific disciplines: computer science, biology, economics, and epistemology. The definition of activity usually used in simulation is extended to new qualitative and quantitative definitions. In computer science, biology and economics disciplines, the new simulation activity definition is first applied critically. Then, activity is discussed generally. In epistemology, activity is discussed, in a prospective way, as a possible framework in models of human beliefs and knowledge.

The aim of this paper is to describe and analyze the epistemological justification of a proposal initially made by the bio-mathematician Robert Rosen in 1958. In this theoretical proposal, Rosen suggests using the mathematical concept of « category » and the correlative concept of « natural equivalence » in mathematical modeling applied to living beings. Our questions are the following: according to Rosen, to what extent does the mathematical notion of category give access to more « natural » formalisms in the modeling of living beings? Is the so-called « naturalness » of some kinds of equivalences (which the mathematical notion of category makes it possible to generalize and to put at the forefront) analogous to the naturalness of living systems? Rosen appears to answer « yes » and to ground this transfer of the concept of « natural equivalence » in biology on such an analogy. But this hypothesis, although fertile, remains debatable. Finally, this paper makes a brief account of the later evolution of Rosen’s arguments about this topic. In particular, it sheds light on the new role played by the notion of « category » in his more recent objections against computational models that since the 1990’s are pervading almost every domain of biology.

Since the 1990’s, social sciences are living their computational turn. This paper aims to clarify the epistemological meaning of this turn. To do this, we have to discriminate between different epistemic functions of computation among the diverse uses of computers for modeling and simulating in the social sciences. Because of the introduction of a new – and often more user-friendly – way of formalizing and computing, the question of realism of formalisms and of proof value of computational treatments reemerges. Facing the spreading of computational simulations in all disciplines, some enthusiastic observers are claiming that we are entering a new era of unity for social sciences. Finally, the article shows that the conceptual and epistemological distinctions presented in the first sections lead to a more mitigated position: the transdisciplinary computational turn is a great one, but it is of a methodological nature.