I don't understand the question. What do you mean "takes forever"?
Are you compiling the file? By default, when you load an scm file,
the guile compiler runs. This can take a very long time, if the file
is large. It is also a complete waste of time, if the file contains
only atoms and nothing else. It would be best to just disable
compilation -- i.e. use primitive-load instead of load
https://www.gnu.org/software/guile/manual/html_node/Loading.html
viz do not use load_scm(), it is probably mis-handling the compilation step.
The other alternative is to dump your atoms into an sql db and use
that, however, this is a bit more complex if you are not regularly
working with big data.
--linas
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