INDRA (Integrated Network and Dynamical Reasoning Assembler) is an automated model assembly system interfacing with NLP systems and databases to collect knowledge, and through a process of assembly, produce causal graphs and dynamical models.
inspect.getargspec is deprecated since 3.0(!), was removed in 3.11 and is replaced by inspect.getfullargspec. inspect.signature is also mentioned as the python 3 preferred way to deal with introspection, but inspect.getfullargspec seems to be safe from removal (for now) so easiest is to just replace it.
inspect.getargspecis deprecated since 3.0(!), was removed in 3.11 and is replaced byinspect.getfullargspec.inspect.signatureis also mentioned as the python 3 preferred way to deal with introspection, butinspect.getfullargspecseems to be safe from removal (for now) so easiest is to just replace it.This affects the pipeline module: https://github.com/sorgerlab/indra/blob/master/indra/pipeline/pipeline.py#L323
See the Python 3.10 docs for the last version mentioning of
inspect.getargspec: https://docs.python.org/3.10/library/inspect.html#inspect.getargspec