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Upgrade dependencies after v0.23 (#1181)

* loosen some pins, upgrade dependencies

Signed-off-by: Nicolas Höning <nicolas@seita.nl>

* fix: remove outdated code (since #801) which cut off first lines of test.in when testing latest dependencies

Signed-off-by: Nicolas Höning <nicolas@seita.nl>

* bump timely-beliefs and numpy, remove two unused dependencies

Signed-off-by: Nicolas Höning <nicolas@seita.nl>

* update black and flake8

Signed-off-by: Nicolas Höning <nicolas@seita.nl>

* revert black and flake8 update (-> separate PR)

Signed-off-by: Nicolas Höning <nicolas@seita.nl>

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Signed-off-by: Nicolas Höning <nicolas@seita.nl>

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