networks: Move the tests to the test submodule.
This commit is contained in:
Sergiu Ivanov
parent
ff9189270e
commit
c8d88de6c2
2 changed files with 352 additions and 294 deletions
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@ -1,294 +0,0 @@
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#lang racket
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;;; Tests for dds/networks.
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(require rackunit graph "networks.rkt")
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;;; This test case sets up the following Boolean network:
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;;; x1 = x1 AND NOT x2
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;;; x2 = NOT x2
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(test-case "Basic definitions"
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(let* ([f1 (λ (s)
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(let ([x1 (hash-ref s 'x1)]
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[x2 (hash-ref s 'x2)])
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(and x1 (not x2))))]
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[f2 (λ (s)
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(let ([x2 (hash-ref s 'x2)])
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(not x2)))]
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[bn (make-network-from-functions `((x1 . ,f1) (x2 . ,f2)))])
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(test-case "States"
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(check-equal? (make-state-booleanize '((a . 0) (b . 1)))
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(make-state '((a . #f) (b . #t))))
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(check-equal? (booleanize-state (make-state '((a . 0) (b . 1))))
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(make-state '((a . #f) (b . #t)))))
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(test-case "One-step syncronous update"
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(let* ([s (make-state '((x1 . #t) (x2 . #f)))]
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[new-s (update bn s '(x2 x1))])
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(check-equal? s #hash((x1 . #t) (x2 . #f)))
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(check-equal? new-s #hash((x1 . #t) (x2 . #t)))))
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(test-case "One-step asynchronous update"
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(let* ([s (make-state '((x1 . #f) (x2 . #f)))]
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[new-s (update bn s '(x2 x1))])
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(check-equal? s #hash((x1 . #f) (x2 . #f)))
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(check-equal? new-s #hash((x1 . #f) (x2 . #t)))))))
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(test-case "Syntactic description of Boolean networks"
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(let ([s (make-state '((x . #t) (y . #f)))]
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[f (update-function-form->update-function '(and x y))])
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(check-equal? (f s) #f))
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(let ([bn1 (network-form->network (make-hash '((a . (and a b)) (b . (not b)))))]
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[bn2 (make-network-from-forms '((a . (and a b))
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(b . (not b))))]
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[bn3 (network-form->network #hash((a . (and a b))
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(b . (not b))))]
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[s (make-state '((a . #t) (b . #t)))])
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(check-equal? ((hash-ref bn1 'a) s) #t)
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(check-equal? ((hash-ref bn2 'a) s) #t)
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(check-equal? ((hash-ref bn3 'a) s) #t)))
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(test-case "Inferring interaction graphs"
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(let* ([n #hash((a . (+ a b c))
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(b . (- b c)))]
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[ig (build-interaction-graph n)])
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(check-true (set=? (list-interactions n 'a) '(a b)))
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(check-true (set=? (list-interactions n 'b) '(b)))
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(check-true (has-vertex? ig 'a))
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(check-true (has-vertex? ig 'b))
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(check-false (has-vertex? ig 'c))
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(check-true (has-edge? ig 'a 'a))
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(check-true (has-edge? ig 'b 'a))
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(check-true (has-edge? ig 'b 'b))
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(check-false (has-edge? ig 'c 'b))
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(check-false (has-edge? ig 'c 'a)))
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(check-equal? (build-all-states #hash((a . (#t #f)) (b . (1 2 3))))
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'(#hash((a . #t) (b . 1))
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#hash((a . #t) (b . 2))
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#hash((a . #t) (b . 3))
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#hash((a . #f) (b . 1))
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#hash((a . #f) (b . 2))
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#hash((a . #f) (b . 3))))
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(check-equal? (make-boolean-domains '(a b))
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#hash((a . (#f #t)) (b . (#f #t))))
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(check-equal? (build-all-boolean-states '(a b))
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'(#hash((a . #f) (b . #f))
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#hash((a . #f) (b . #t))
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#hash((a . #t) (b . #f))
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#hash((a . #t) (b . #t))))
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(let* ([n #hash((a . (not b)) (b . a))]
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[doms (make-boolean-domains '(a b))]
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[sig1 (build-signed-interaction-graph/form n doms)]
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[sig2 (build-boolean-signed-interaction-graph/form n)]
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[sig3 (build-boolean-signed-interaction-graph (network-form->network n))])
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(check-equal? (get-interaction-sign (network-form->network n) doms 'a 'b) '+)
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(check-equal? (get-interaction-sign (network-form->network n) doms 'b 'a) '-)
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(check-true (has-vertex? sig1 'a))
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(check-true (has-vertex? sig1 'b))
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(check-false (has-vertex? sig1 'c))
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(check-false (has-edge? sig1 'a 'a))
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(check-true (has-edge? sig1 'b 'a))
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(check-false (has-edge? sig1 'b 'b))
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(check-false (has-edge? sig1 'c 'b))
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(check-false (has-edge? sig1 'c 'a))
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(check-equal? (edge-weight sig1 'a 'b) '+)
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(check-equal? (edge-weight sig1 'b 'a) '-)
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(check-true (has-vertex? sig2 'a))
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(check-true (has-vertex? sig2 'b))
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(check-false (has-vertex? sig2 'c))
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(check-false (has-edge? sig2 'a 'a))
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(check-true (has-edge? sig2 'b 'a))
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(check-false (has-edge? sig2 'b 'b))
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(check-false (has-edge? sig2 'c 'b))
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(check-false (has-edge? sig2 'c 'a))
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(check-equal? (edge-weight sig2 'a 'b) '+)
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(check-equal? (edge-weight sig2 'b 'a) '-)
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(check-true (has-vertex? sig3 'a))
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(check-true (has-vertex? sig3 'b))
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(check-equal? (edge-weight sig3 'a 'a) '+)
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(check-equal? (edge-weight sig3 'b 'b) '+)
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(check-equal? (edge-weight sig3 'a 'b) '+)
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(check-equal? (edge-weight sig3 'b 'a) '-))
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(let* ([n #hash((a . #t) (b . #t))]
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[ig (build-interaction-graph n)]
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[sig-nf (build-boolean-signed-interaction-graph/form n)]
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[sig (build-boolean-signed-interaction-graph (network-form->network n))])
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(check-equal? (get-vertices ig) '(b a))
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(check-true (empty? (get-edges ig)))
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(check-equal? (get-vertices sig-nf) '(b a))
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(check-true (empty? (get-edges sig-nf)))
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(check-equal? (get-vertices sig) '(b a))))
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(test-case "Dynamics of networks"
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(check-equal? (pretty-print-state (make-state '((a . #f) (b . 3) (c . 4)))) "a:#f b:3 c:4")
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(check-equal? (pretty-print-boolean-state (make-state '((a . #f) (b . #t) (c . #t)))) "a:0 b:1 c:1")
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(let ([vars '(a b c)])
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(check-equal? (make-asyn vars) (set (set 'a) (set 'b) (set 'c)))
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(check-equal? (make-syn vars) (set (set 'a 'b 'c))))
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(let* ([n (network-form->network #hash((a . (not a)) (b . b)))]
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[asyn (make-asyn-dynamics n)]
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[syn (make-syn-dynamics n)])
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(check-equal? (dynamics-network asyn) n)
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(check-equal? (dynamics-mode asyn) (set (set 'a) (set 'b)))
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(check-equal? (dynamics-network syn) n)
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(check-equal? (dynamics-mode syn) (set (set 'a 'b))))
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(let* ([n (network-form->network #hash((a . (not a)) (b . b)))]
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[asyn (make-asyn-dynamics n)]
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[syn (make-syn-dynamics n)]
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[s (make-state '((a . #t) (b . #f)))]
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[ss (set (make-state '((a . #t) (b . #t)))
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(make-state '((a . #f) (b . #t))))]
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[gr1 (dds-build-n-step-state-graph asyn (set s) 1)]
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[gr-full (dds-build-state-graph asyn (set s))]
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[gr-full-pp (pretty-print-state-graph gr-full)]
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[gr-full-ppb (pretty-print-boolean-state-graph gr-full)]
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[gr-complete-bool (build-full-boolean-state-graph asyn)]
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[gr-complete-bool-ann (build-full-boolean-state-graph-annotated asyn)])
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(check-equal? (dds-step-one asyn s) (set (make-state '((a . #f) (b . #f)))
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(make-state '((a . #t) (b . #f)))))
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(check-equal? (dds-step-one-annotated asyn s)
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(set (cons (set 'b) '#hash((a . #t) (b . #f)))
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(cons (set 'a) '#hash((a . #f) (b . #f)))))
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(check-equal? (dds-step-one syn s) (set (make-state '((a . #f) (b . #f)))))
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(check-equal? (dds-step asyn ss)
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(set (make-state '((a . #f) (b . #t)))
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(make-state '((a . #t) (b . #t)))))
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(check-true (has-vertex? gr1 #hash((a . #t) (b . #f))))
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(check-true (has-vertex? gr1 #hash((a . #f) (b . #f))))
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(check-false (has-vertex? gr1 #hash((a . #t) (b . #t))))
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(check-true (has-edge? gr1 #hash((a . #t) (b . #f)) #hash((a . #f) (b . #f))))
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(check-true (has-edge? gr1 #hash((a . #t) (b . #f)) #hash((a . #t) (b . #f))))
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(check-false (has-edge? gr1 #hash((a . #f) (b . #f)) #hash((a . #t) (b . #f))))
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(check-true (has-vertex? gr-full #hash((a . #t) (b . #f))))
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(check-true (has-vertex? gr-full #hash((a . #f) (b . #f))))
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(check-false (has-vertex? gr-full #hash((a . #t) (b . #t))))
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(check-true (has-edge? gr-full #hash((a . #t) (b . #f)) #hash((a . #f) (b . #f))))
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(check-true (has-edge? gr-full #hash((a . #t) (b . #f)) #hash((a . #t) (b . #f))))
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(check-true (has-edge? gr-full #hash((a . #f) (b . #f)) #hash((a . #t) (b . #f))))
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(check-true (has-edge? gr-full #hash((a . #f) (b . #f)) #hash((a . #f) (b . #f))))
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(check-true (has-vertex? gr-full-pp "a:#f b:#f"))
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(check-true (has-vertex? gr-full-pp "a:#t b:#f"))
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(check-true (has-vertex? gr-full-ppb "a:0 b:0"))
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(check-true (has-vertex? gr-full-ppb "a:1 b:0"))
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(check-equal? (get-edges gr-complete-bool)
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'((#hash((a . #f) (b . #f)) #hash((a . #t) (b . #f)))
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(#hash((a . #f) (b . #f)) #hash((a . #f) (b . #f)))
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(#hash((a . #t) (b . #f)) #hash((a . #t) (b . #f)))
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(#hash((a . #t) (b . #f)) #hash((a . #f) (b . #f)))
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(#hash((a . #t) (b . #t)) #hash((a . #f) (b . #t)))
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(#hash((a . #t) (b . #t)) #hash((a . #t) (b . #t)))
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(#hash((a . #f) (b . #t)) #hash((a . #f) (b . #t)))
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(#hash((a . #f) (b . #t)) #hash((a . #t) (b . #t)))))
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(check-equal? (get-edges gr-complete-bool-ann)
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'((#hash((a . #f) (b . #f)) #hash((a . #t) (b . #f)))
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(#hash((a . #f) (b . #f)) #hash((a . #f) (b . #f)))
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(#hash((a . #t) (b . #f)) #hash((a . #t) (b . #f)))
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(#hash((a . #t) (b . #f)) #hash((a . #f) (b . #f)))
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(#hash((a . #t) (b . #t)) #hash((a . #f) (b . #t)))
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(#hash((a . #t) (b . #t)) #hash((a . #t) (b . #t)))
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(#hash((a . #f) (b . #t)) #hash((a . #f) (b . #t)))
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(#hash((a . #f) (b . #t)) #hash((a . #t) (b . #t)))))
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(check-equal? (edge-weight gr-complete-bool-ann
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#hash((a . #f) (b . #f)) #hash((a . #t) (b . #f)))
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(set (set 'a)))
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(check-equal? (edge-weight gr-complete-bool-ann
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#hash((a . #f) (b . #f)) #hash((a . #f) (b . #f)))
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(set (set 'b)))
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(check-equal? (edge-weight gr-complete-bool-ann
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#hash((a . #t) (b . #f)) #hash((a . #t) (b . #f)))
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(set (set 'b)))
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(check-equal? (edge-weight gr-complete-bool-ann
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#hash((a . #t) (b . #f)) #hash((a . #f) (b . #f)))
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(set (set 'a)))
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(check-equal? (edge-weight gr-complete-bool-ann
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#hash((a . #t) (b . #t)) #hash((a . #f) (b . #t)))
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(set (set 'a)))
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(check-equal? (edge-weight gr-complete-bool-ann
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#hash((a . #t) (b . #t)) #hash((a . #t) (b . #t)))
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(set (set 'b)))
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(check-equal? (edge-weight gr-complete-bool-ann
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#hash((a . #f) (b . #t)) #hash((a . #f) (b . #t)))
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(set (set 'b)))
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(check-equal? (edge-weight gr-complete-bool-ann
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#hash((a . #f) (b . #t)) #hash((a . #t) (b . #t)))
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(set (set 'a)))))
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(test-case "Tabulating functions and networks"
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(check-equal? (tabulate/domain-list (λ (x y) (and x y)) '((#f #t) (#f #t)))
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'((#f #f #f) (#f #t #f) (#t #f #f) (#t #t #t)))
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(check-equal? (tabulate (λ (x y) (and x y)) '(#f #t) '(#f #t))
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'((#f #f #f) (#f #t #f) (#t #f #f) (#t #t #t)))
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(check-equal? (tabulate/boolean (lambda (x y) (and x y)))
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'((#f #f #f) (#f #t #f) (#t #f #f) (#t #t #t)))
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(let ([func (λ (st) (not (hash-ref st 'a)))])
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(check-equal? (tabulate-state/boolean func '(a)) '((a f) (#f #t) (#t #f))))
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(let ([bn (network-form->network #hash((a . (not a)) (b . b)))])
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(check-equal? (tabulate-boolean-network bn)
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'((a b f-a f-b) (#f #f #t #f) (#f #t #t #t) (#t #f #f #f) (#t #t #f #t)))
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(check-equal? (tabulate-boolean-network bn #:headers #f)
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'((#f #f #t #f) (#f #t #t #t) (#t #f #f #f) (#t #t #f #t)))))
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(test-case "Constructing functions and networks"
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(check-equal? (boolean-power 2) '((#f #f) (#f #t) (#t #f) (#t #t)))
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(check-equal? (stream->list (boolean-power/stream 2)) '((#f #f) (#f #t) (#t #f) (#t #t)))
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(let ([negation (table->function '((#t #f) (#f #t)))]
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[negation/list (table->function/list '((#t #f) (#f #t)))])
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(check-true (negation #f)) (check-false (negation #t))
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(check-true (negation/list '(#f))) (check-false (negation/list '(#t))))
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(let* ([n (table->network '((x1 x2 f1 f2)
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(#f #f #f #f)
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(#f #t #f #t)
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(#t #f #t #f)
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(#t #t #t #t)))]
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[f1 (hash-ref n 'x1)]
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[f2 (hash-ref n 'x2)])
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(check-false (f1 (make-state '((x1 . #f) (x2 . #f)))))
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(check-false (f1 (make-state '((x1 . #f) (x2 . #t)))))
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(check-true (f1 (make-state '((x1 . #t) (x2 . #f)))))
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(check-true (f1 (make-state '((x1 . #t) (x2 . #t)))))
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(check-false (f2 (make-state '((x1 . #f) (x2 . #f)))))
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(check-true (f2 (make-state '((x1 . #f) (x2 . #t)))))
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(check-false (f2 (make-state '((x1 . #t) (x2 . #f)))))
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(check-true (f2 (make-state '((x1 . #t) (x2 . #t))))))
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(let ([f1 (stream-first (enumerate-boolean-functions 1))]
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[f1/list (stream-first (enumerate-boolean-functions/list 1))])
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(check-false (f1 #f)) (check-false (f1 #t))
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(check-false (f1/list '(#f))) (check-false (f1/list '(#t)))))
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(test-case "Random functions and networks"
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(random-seed 0)
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(check-equal? (random-boolean-table 2) '((#f #f #t) (#f #t #t) (#t #f #f) (#t #t #f)))
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(let ([f (random-boolean-function 2)])
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(check-true (f #f #f)) (check-false (f #f #t)) (check-true (f #t #f)) (check-false (f #t #t)))
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(let ([f (random-boolean-function/list 2)])
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(check-false (f '(#f #f))) (check-true (f '(#f #t)))
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(check-true (f '(#t #f))) (check-false (f '(#t #t))))
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(begin
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(random-seed 0)
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(define f (random-boolean-function/state '(x1 x2)))
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(check-equal? (tabulate-state/boolean f '(x1 x2))
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'((x1 x2 f) (#f #f #f) (#f #t #f) (#t #f #t) (#t #t #t)))
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(check-equal? (tabulate-state/boolean f '(x1 x2) #:headers #f)
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'((#f #f #f) (#f #t #f) (#t #f #t) (#t #t #t)))
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(define bn (random-boolean-network/vars 3))
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(check-equal? (tabulate-boolean-network bn)
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'((x0 x1 x2 f-x0 f-x1 f-x2)
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(#f #f #f #f #t #f)
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(#f #f #t #t #f #f)
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(#f #t #f #f #t #t)
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(#f #t #t #t #f #f)
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(#t #f #f #t #f #t)
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(#t #f #t #f #f #t)
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(#t #t #f #f #f #f)
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(#t #t #t #t #t #t)))))
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352
networks.rkt
352
networks.rkt
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@ -97,6 +97,10 @@
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[update-function/c contract?]
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[domain-mapping/c contract?]))
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(module+ test
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(require rackunit)
|
||||
(random-seed 0))
|
||||
|
||||
|
||||
;;; =================
|
||||
;;; Basic definitions
|
||||
|
|
@ -124,6 +128,22 @@
|
|||
(let ([f (hash-ref network x)])
|
||||
(hash-set new-s x (f s)))))
|
||||
|
||||
(module+ test
|
||||
(let* ([f1 (λ (s) (let ([x1 (hash-ref s 'x1)]
|
||||
[x2 (hash-ref s 'x2)])
|
||||
(and x1 (not x2))))]
|
||||
[f2 (λ (s) (let ([x2 (hash-ref s 'x2)])
|
||||
(not x2)))]
|
||||
[bn (make-network-from-functions `((x1 . ,f1) (x2 . ,f2)))]
|
||||
[s1 (make-state '((x1 . #t) (x2 . #f)))]
|
||||
[new-s1 (update bn s1 '(x2 x1))]
|
||||
[s2 (make-state '((x1 . #f) (x2 . #f)))]
|
||||
[new-s2 (update bn s2 '(x2))])
|
||||
(check-equal? s1 #hash((x1 . #t) (x2 . #f)))
|
||||
(check-equal? new-s1 #hash((x1 . #t) (x2 . #t)))
|
||||
(check-equal? s2 #hash((x1 . #f) (x2 . #f)))
|
||||
(check-equal? new-s2 #hash((x1 . #f) (x2 . #t)))))
|
||||
|
||||
;;; A version of make-immutable-hash restricted to creating network
|
||||
;;; states (see contract).
|
||||
(define (make-state mappings) (make-immutable-hash mappings))
|
||||
|
|
@ -136,6 +156,12 @@
|
|||
[(cons var 0) (cons var #f)]
|
||||
[(cons var 1) (cons var #t)]))))
|
||||
|
||||
(module+ test
|
||||
(check-equal? (make-state-booleanize '((a . 0) (b . 1)))
|
||||
(make-state '((a . #f) (b . #t))))
|
||||
(check-equal? (booleanize-state (make-state '((a . 0) (b . 1))))
|
||||
(make-state '((a . #f) (b . #t)))))
|
||||
|
||||
;;; Booleanizes a given state: replaces 0 with #f and 1 with #t.
|
||||
(define (booleanize-state s)
|
||||
(for/hash ([(x val) s]) (match val [0 (values x #f)] [1 (values x #t)])))
|
||||
|
|
@ -161,15 +187,32 @@
|
|||
(define (update-function-form->update-function form)
|
||||
(λ (s) (eval-with s form)))
|
||||
|
||||
(module+ test
|
||||
(let ([s (make-state '((x . #t) (y . #f)))]
|
||||
[f (update-function-form->update-function '(and x y))])
|
||||
(check-equal? (f s) #f)))
|
||||
|
||||
;;; Build a network from a network form.
|
||||
(define (network-form->network bnf)
|
||||
(for/hash ([(x form) bnf])
|
||||
(values x (update-function-form->update-function form))))
|
||||
|
||||
(module+ test
|
||||
(let ([bn (network-form->network
|
||||
(make-hash '((a . (and a b)) (b . (not b)))))]
|
||||
[s (make-state '((a . #t) (b . #t)))])
|
||||
(check-equal? ((hash-ref bn 'a) s) #t)))
|
||||
|
||||
;;; Build a network from a list of pairs of forms of update functions.
|
||||
(define (make-network-from-forms forms)
|
||||
(network-form->network (make-immutable-hash forms)))
|
||||
|
||||
(module+ test
|
||||
(let ([bn (make-network-from-forms '((a . (and a b))
|
||||
(b . (not b))))]
|
||||
[s (make-state '((a . #t) (b . #t)))])
|
||||
(check-equal? ((hash-ref bn 'a) s) #t)))
|
||||
|
||||
|
||||
;;; ============================
|
||||
;;; Inferring interaction graphs
|
||||
|
|
@ -196,6 +239,12 @@
|
|||
(extract-symbols (hash-ref nf x))
|
||||
(hash-keys nf)))
|
||||
|
||||
(module+ test
|
||||
(let* ([n #hash((a . (+ a b c))
|
||||
(b . (- b c)))])
|
||||
(check-true (set=? (list-interactions n 'a) '(a b)))
|
||||
(check-true (set=? (list-interactions n 'b) '(b)))))
|
||||
|
||||
;;; Builds the graph in which the vertices are the variables of a
|
||||
;;; given network, and which contains an arrow from a to b whenever a
|
||||
;;; appears in (list-interactions a).
|
||||
|
|
@ -204,6 +253,19 @@
|
|||
(unweighted-graph/adj
|
||||
(for/list ([(var _) n]) (cons var (list-interactions n var))))))
|
||||
|
||||
(module+ test
|
||||
(let* ([n #hash((a . (+ a b c))
|
||||
(b . (- b c)))]
|
||||
[ig (build-interaction-graph n)])
|
||||
(check-true (has-vertex? ig 'a))
|
||||
(check-true (has-vertex? ig 'b))
|
||||
(check-false (has-vertex? ig 'c))
|
||||
(check-true (has-edge? ig 'a 'a))
|
||||
(check-true (has-edge? ig 'b 'a))
|
||||
(check-true (has-edge? ig 'b 'b))
|
||||
(check-false (has-edge? ig 'c 'b))
|
||||
(check-false (has-edge? ig 'c 'a))))
|
||||
|
||||
;;; A domain mapping is a hash set mapping variables to the lists of
|
||||
;;; values in their domains.
|
||||
(define domain-mapping/c (hash/c variable? list?))
|
||||
|
|
@ -218,6 +280,15 @@
|
|||
(make-state (for/list ([var vars] [val s])
|
||||
(cons var val))))))
|
||||
|
||||
(module+ test
|
||||
(check-equal? (build-all-states #hash((a . (#t #f)) (b . (1 2 3))))
|
||||
'(#hash((a . #t) (b . 1))
|
||||
#hash((a . #t) (b . 2))
|
||||
#hash((a . #t) (b . 3))
|
||||
#hash((a . #f) (b . 1))
|
||||
#hash((a . #f) (b . 2))
|
||||
#hash((a . #f) (b . 3)))))
|
||||
|
||||
;;; Makes a hash set mapping all variables to a single domain.
|
||||
(define (make-same-domains vars domain)
|
||||
(for/hash ([var vars]) (values var domain)))
|
||||
|
|
@ -226,10 +297,21 @@
|
|||
(define (make-boolean-domains vars)
|
||||
(make-same-domains vars '(#f #t)))
|
||||
|
||||
(module+ test
|
||||
(check-equal? (make-boolean-domains '(a b))
|
||||
#hash((a . (#f #t)) (b . (#f #t)))))
|
||||
|
||||
;;; Builds all boolean states possible over a given set of variables.
|
||||
(define (build-all-boolean-states vars)
|
||||
(build-all-states (make-boolean-domains vars)))
|
||||
|
||||
(module+ test
|
||||
(check-equal? (build-all-boolean-states '(a b))
|
||||
'(#hash((a . #f) (b . #f))
|
||||
#hash((a . #f) (b . #t))
|
||||
#hash((a . #t) (b . #f))
|
||||
#hash((a . #t) (b . #t)))))
|
||||
|
||||
;;; Given two interacting variables of a network and the domains
|
||||
;;; of the variables, returns '+ if the interaction is monotonously
|
||||
;;; increasing, '- if it is monotonously decreasing, and '0 otherwise.
|
||||
|
|
@ -275,6 +357,12 @@
|
|||
;; decreasing.
|
||||
[else '0])))
|
||||
|
||||
(module+ test
|
||||
(let* ([n #hash((a . (not b)) (b . a))]
|
||||
[doms (make-boolean-domains '(a b))])
|
||||
(check-equal? (get-interaction-sign (network-form->network n) doms 'a 'b) '+)
|
||||
(check-equal? (get-interaction-sign (network-form->network n) doms 'b 'a) '-)))
|
||||
|
||||
;;; Constructs a signed interaction graph of a given network form,
|
||||
;;; given the ordered domains of its variables. The order on the
|
||||
;;; domains determines the signs which will appear on the interaction
|
||||
|
|
@ -299,6 +387,21 @@
|
|||
(add-vertex! sig v))
|
||||
sig))
|
||||
|
||||
(module+ test
|
||||
(let* ([n #hash((a . (not b)) (b . a))]
|
||||
[doms (make-boolean-domains '(a b))]
|
||||
[sig1 (build-signed-interaction-graph/form n doms)])
|
||||
(check-true (has-vertex? sig1 'a))
|
||||
(check-true (has-vertex? sig1 'b))
|
||||
(check-false (has-vertex? sig1 'c))
|
||||
(check-false (has-edge? sig1 'a 'a))
|
||||
(check-true (has-edge? sig1 'b 'a))
|
||||
(check-false (has-edge? sig1 'b 'b))
|
||||
(check-false (has-edge? sig1 'c 'b))
|
||||
(check-false (has-edge? sig1 'c 'a))
|
||||
(check-equal? (edge-weight sig1 'a 'b) '+)
|
||||
(check-equal? (edge-weight sig1 'b 'a) '-)))
|
||||
|
||||
;;; Calls build-signed-interaction-graph with the Boolean domain for
|
||||
;;; all variable.
|
||||
;;;
|
||||
|
|
@ -309,6 +412,20 @@
|
|||
network-form
|
||||
(make-boolean-domains (hash-keys network-form))))
|
||||
|
||||
(module+ test
|
||||
(let* ([n #hash((a . (not b)) (b . a))]
|
||||
[sig2 (build-boolean-signed-interaction-graph/form n)])
|
||||
(check-true (has-vertex? sig2 'a))
|
||||
(check-true (has-vertex? sig2 'b))
|
||||
(check-false (has-vertex? sig2 'c))
|
||||
(check-false (has-edge? sig2 'a 'a))
|
||||
(check-true (has-edge? sig2 'b 'a))
|
||||
(check-false (has-edge? sig2 'b 'b))
|
||||
(check-false (has-edge? sig2 'c 'b))
|
||||
(check-false (has-edge? sig2 'c 'a))
|
||||
(check-equal? (edge-weight sig2 'a 'b) '+)
|
||||
(check-equal? (edge-weight sig2 'b 'a) '-)))
|
||||
|
||||
;;; Similar to build-signed-interaction-graph/form, but operates on a
|
||||
;;; network rather than a form. The resulting graph only includes the
|
||||
;;; edges for positive or negative interactions.
|
||||
|
|
@ -348,6 +465,30 @@
|
|||
(define (build-boolean-signed-interaction-graph network)
|
||||
(build-signed-interaction-graph network (make-boolean-domains (hash-keys network))))
|
||||
|
||||
(module+ test
|
||||
(let* ([n #hash((a . (not b)) (b . a))]
|
||||
[sig3 (build-boolean-signed-interaction-graph (network-form->network n))])
|
||||
(check-true (has-vertex? sig3 'a))
|
||||
(check-true (has-vertex? sig3 'b))
|
||||
(check-equal? (edge-weight sig3 'a 'a) '+)
|
||||
(check-equal? (edge-weight sig3 'b 'b) '+)
|
||||
(check-equal? (edge-weight sig3 'a 'b) '+)
|
||||
(check-equal? (edge-weight sig3 'b 'a) '-)))
|
||||
|
||||
;;; Interaction graphs for networks without interactions must still
|
||||
;;; contain all networks.
|
||||
(module+ test
|
||||
(let* ([n #hash((a . #t) (b . #t))]
|
||||
[ig (build-interaction-graph n)]
|
||||
[sig-nf (build-boolean-signed-interaction-graph/form n)]
|
||||
[sig (build-boolean-signed-interaction-graph (network-form->network n))])
|
||||
(check-equal? (get-vertices ig) '(b a))
|
||||
(check-true (empty? (get-edges ig)))
|
||||
(check-equal? (get-vertices sig-nf) '(b a))
|
||||
(check-true (empty? (get-edges sig-nf)))
|
||||
(check-equal? (get-vertices sig) '(b a))))
|
||||
|
||||
|
||||
;;; ====================
|
||||
;;; Dynamics of networks
|
||||
;;; ====================
|
||||
|
|
@ -378,6 +519,11 @@
|
|||
;;; containing the set of variables).
|
||||
(define (make-syn vars) (set (list->set vars)))
|
||||
|
||||
(module+ test
|
||||
(let ([vars '(a b c)])
|
||||
(check-equal? (make-asyn vars) (set (set 'a) (set 'b) (set 'c)))
|
||||
(check-equal? (make-syn vars) (set (set 'a 'b 'c)))))
|
||||
|
||||
;;; Given a network, applies a function for building a mode to its
|
||||
;;; variables and returns the corresponding network dynamics.
|
||||
(define (make-dynamics-from-func network mode-func)
|
||||
|
|
@ -391,6 +537,15 @@
|
|||
(define (make-syn-dynamics network)
|
||||
(make-dynamics-from-func network make-syn))
|
||||
|
||||
(module+ test
|
||||
(let* ([n (network-form->network #hash((a . (not a)) (b . b)))]
|
||||
[asyn (make-asyn-dynamics n)]
|
||||
[syn (make-syn-dynamics n)])
|
||||
(check-equal? (dynamics-network asyn) n)
|
||||
(check-equal? (dynamics-mode asyn) (set (set 'a) (set 'b)))
|
||||
(check-equal? (dynamics-network syn) n)
|
||||
(check-equal? (dynamics-mode syn) (set (set 'a 'b)))))
|
||||
|
||||
;;; Reads an Org-mode-produced sexp, converts it into a network, and
|
||||
;;; builds the asyncronous dynamics out of it.
|
||||
(define read-org-network-make-asyn (compose make-asyn-dynamics network-form->network read-org-variable-mapping))
|
||||
|
|
@ -403,6 +558,10 @@
|
|||
(define (pretty-print-state s)
|
||||
(string-join (hash-map s (λ (key val) (format "~a:~a" key val)) #t)))
|
||||
|
||||
(module+ test
|
||||
(check-equal? (pretty-print-state (make-state '((a . #f) (b . 3) (c . 4))))
|
||||
"a:#f b:3 c:4"))
|
||||
|
||||
;;; Converts any non-#f value to 1 and #f to 0.
|
||||
(define (any->boolean x) (if x 1 0))
|
||||
|
||||
|
|
@ -410,6 +569,11 @@
|
|||
(define (pretty-print-boolean-state s)
|
||||
(string-join (hash-map s (λ (key val) (format "~a:~a" key (any->boolean val))) #t)))
|
||||
|
||||
(module+ test
|
||||
(check-equal?
|
||||
(pretty-print-boolean-state (make-state '((a . #f) (b . #t) (c . #t))))
|
||||
"a:0 b:1 c:1"))
|
||||
|
||||
;;; Given a state graph and a pretty-printer for states build a new
|
||||
;;; state graph with pretty-printed vertices and edges.
|
||||
(define (pretty-print-state-graph-with gr pprinter)
|
||||
|
|
@ -441,6 +605,94 @@
|
|||
dyn
|
||||
(list->set (build-all-boolean-states (hash-keys (dynamics-network dyn))))))
|
||||
|
||||
(module+ test
|
||||
(let* ([n (network-form->network #hash((a . (not a)) (b . b)))]
|
||||
[asyn (make-asyn-dynamics n)]
|
||||
[syn (make-syn-dynamics n)]
|
||||
[s (make-state '((a . #t) (b . #f)))]
|
||||
[ss (set (make-state '((a . #t) (b . #t)))
|
||||
(make-state '((a . #f) (b . #t))))]
|
||||
[gr1 (dds-build-n-step-state-graph asyn (set s) 1)]
|
||||
[gr-full (dds-build-state-graph asyn (set s))]
|
||||
[gr-full-pp (pretty-print-state-graph gr-full)]
|
||||
[gr-full-ppb (pretty-print-boolean-state-graph gr-full)]
|
||||
[gr-complete-bool (build-full-boolean-state-graph asyn)]
|
||||
[gr-complete-bool-ann (build-full-boolean-state-graph-annotated asyn)])
|
||||
(check-equal? (dds-step-one asyn s) (set (make-state '((a . #f) (b . #f)))
|
||||
(make-state '((a . #t) (b . #f)))))
|
||||
(check-equal? (dds-step-one-annotated asyn s)
|
||||
(set (cons (set 'b) '#hash((a . #t) (b . #f)))
|
||||
(cons (set 'a) '#hash((a . #f) (b . #f)))))
|
||||
(check-equal? (dds-step-one syn s) (set (make-state '((a . #f) (b . #f)))))
|
||||
(check-equal? (dds-step asyn ss)
|
||||
(set (make-state '((a . #f) (b . #t)))
|
||||
(make-state '((a . #t) (b . #t)))))
|
||||
(check-true (has-vertex? gr1 #hash((a . #t) (b . #f))))
|
||||
(check-true (has-vertex? gr1 #hash((a . #f) (b . #f))))
|
||||
(check-false (has-vertex? gr1 #hash((a . #t) (b . #t))))
|
||||
(check-true (has-edge? gr1 #hash((a . #t) (b . #f)) #hash((a . #f) (b . #f))))
|
||||
(check-true (has-edge? gr1 #hash((a . #t) (b . #f)) #hash((a . #t) (b . #f))))
|
||||
(check-false (has-edge? gr1 #hash((a . #f) (b . #f)) #hash((a . #t) (b . #f))))
|
||||
|
||||
(check-true (has-vertex? gr-full #hash((a . #t) (b . #f))))
|
||||
(check-true (has-vertex? gr-full #hash((a . #f) (b . #f))))
|
||||
(check-false (has-vertex? gr-full #hash((a . #t) (b . #t))))
|
||||
(check-true (has-edge? gr-full #hash((a . #t) (b . #f)) #hash((a . #f) (b . #f))))
|
||||
(check-true (has-edge? gr-full #hash((a . #t) (b . #f)) #hash((a . #t) (b . #f))))
|
||||
(check-true (has-edge? gr-full #hash((a . #f) (b . #f)) #hash((a . #t) (b . #f))))
|
||||
(check-true (has-edge? gr-full #hash((a . #f) (b . #f)) #hash((a . #f) (b . #f))))
|
||||
|
||||
(check-true (has-vertex? gr-full-pp "a:#f b:#f"))
|
||||
(check-true (has-vertex? gr-full-pp "a:#t b:#f"))
|
||||
(check-true (has-vertex? gr-full-ppb "a:0 b:0"))
|
||||
(check-true (has-vertex? gr-full-ppb "a:1 b:0"))
|
||||
|
||||
(check-true (set=?
|
||||
(get-edges gr-complete-bool)
|
||||
'((#hash((a . #f) (b . #f)) #hash((a . #t) (b . #f)))
|
||||
(#hash((a . #f) (b . #f)) #hash((a . #f) (b . #f)))
|
||||
(#hash((a . #t) (b . #f)) #hash((a . #t) (b . #f)))
|
||||
(#hash((a . #t) (b . #f)) #hash((a . #f) (b . #f)))
|
||||
(#hash((a . #t) (b . #t)) #hash((a . #f) (b . #t)))
|
||||
(#hash((a . #t) (b . #t)) #hash((a . #t) (b . #t)))
|
||||
(#hash((a . #f) (b . #t)) #hash((a . #f) (b . #t)))
|
||||
(#hash((a . #f) (b . #t)) #hash((a . #t) (b . #t))))))
|
||||
|
||||
(check-true (set=?
|
||||
(get-edges gr-complete-bool-ann)
|
||||
'((#hash((a . #f) (b . #f)) #hash((a . #t) (b . #f)))
|
||||
(#hash((a . #f) (b . #f)) #hash((a . #f) (b . #f)))
|
||||
(#hash((a . #t) (b . #f)) #hash((a . #t) (b . #f)))
|
||||
(#hash((a . #t) (b . #f)) #hash((a . #f) (b . #f)))
|
||||
(#hash((a . #t) (b . #t)) #hash((a . #f) (b . #t)))
|
||||
(#hash((a . #t) (b . #t)) #hash((a . #t) (b . #t)))
|
||||
(#hash((a . #f) (b . #t)) #hash((a . #f) (b . #t)))
|
||||
(#hash((a . #f) (b . #t)) #hash((a . #t) (b . #t))))))
|
||||
(check-equal? (edge-weight gr-complete-bool-ann
|
||||
#hash((a . #f) (b . #f)) #hash((a . #t) (b . #f)))
|
||||
(set (set 'a)))
|
||||
(check-equal? (edge-weight gr-complete-bool-ann
|
||||
#hash((a . #f) (b . #f)) #hash((a . #f) (b . #f)))
|
||||
(set (set 'b)))
|
||||
(check-equal? (edge-weight gr-complete-bool-ann
|
||||
#hash((a . #t) (b . #f)) #hash((a . #t) (b . #f)))
|
||||
(set (set 'b)))
|
||||
(check-equal? (edge-weight gr-complete-bool-ann
|
||||
#hash((a . #t) (b . #f)) #hash((a . #f) (b . #f)))
|
||||
(set (set 'a)))
|
||||
(check-equal? (edge-weight gr-complete-bool-ann
|
||||
#hash((a . #t) (b . #t)) #hash((a . #f) (b . #t)))
|
||||
(set (set 'a)))
|
||||
(check-equal? (edge-weight gr-complete-bool-ann
|
||||
#hash((a . #t) (b . #t)) #hash((a . #t) (b . #t)))
|
||||
(set (set 'b)))
|
||||
(check-equal? (edge-weight gr-complete-bool-ann
|
||||
#hash((a . #f) (b . #t)) #hash((a . #f) (b . #t)))
|
||||
(set (set 'b)))
|
||||
(check-equal? (edge-weight gr-complete-bool-ann
|
||||
#hash((a . #f) (b . #t)) #hash((a . #t) (b . #t)))
|
||||
(set (set 'a)))))
|
||||
|
||||
|
||||
;;; =================================
|
||||
;;; Tabulating functions and networks
|
||||
|
|
@ -453,15 +705,27 @@
|
|||
(for/list ([xs (apply cartesian-product doms)])
|
||||
(append xs (list (apply func xs)))))
|
||||
|
||||
(module+ test
|
||||
(check-equal? (tabulate/domain-list (λ (x y) (and x y)) '((#f #t) (#f #t)))
|
||||
'((#f #f #f) (#f #t #f) (#t #f #f) (#t #t #t))))
|
||||
|
||||
;;; Like tabulate, but the domains are given as a rest argument.
|
||||
(define (tabulate func . doms) (tabulate/domain-list func doms))
|
||||
|
||||
(module+ test
|
||||
(check-equal? (tabulate (λ (x y) (and x y)) '(#f #t) '(#f #t))
|
||||
'((#f #f #f) (#f #t #f) (#t #f #f) (#t #t #t))))
|
||||
|
||||
;;; Like tabulate, but assumes the domains of all variables of the
|
||||
;;; function are Boolean. func must have a fixed arity. It is an
|
||||
;;; error to supply a function of variable arity.
|
||||
(define (tabulate/boolean func)
|
||||
(tabulate/domain-list func (make-list (procedure-arity func) '(#f #t))))
|
||||
|
||||
(module+ test
|
||||
(check-equal? (tabulate/boolean (lambda (x y) (and x y)))
|
||||
'((#f #f #f) (#f #t #f) (#t #f #f) (#t #t #t))))
|
||||
|
||||
;;; Like tabulate, but supposes that the function works on states.
|
||||
;;;
|
||||
;;; The argument domains defines the domains of each of the component
|
||||
|
|
@ -484,6 +748,10 @@
|
|||
(define (tabulate-state/boolean func args #:headers [headers #t])
|
||||
(tabulate-state func (make-boolean-domains args) #:headers headers))
|
||||
|
||||
(module+ test
|
||||
(let ([func (λ (st) (not (hash-ref st 'a)))])
|
||||
(check-equal? (tabulate-state/boolean func '(a)) '((a f) (#f #t) (#t #f)))))
|
||||
|
||||
;;; Tabulates a given network.
|
||||
;;;
|
||||
;;; For a Boolean network with n variables, returns a table with 2n
|
||||
|
|
@ -510,6 +778,14 @@
|
|||
(tabulate-network bn (make-boolean-domains (hash-map bn (λ (x y) x) #t))
|
||||
#:headers headers))
|
||||
|
||||
(module+ test
|
||||
(let ([bn (network-form->network #hash((a . (not a)) (b . b)))])
|
||||
(check-equal? (tabulate-boolean-network bn)
|
||||
'((a b f-a f-b) (#f #f #t #f) (#f #t #t #t) (#t #f #f #f) (#t #t #f #t)))
|
||||
(check-equal? (tabulate-boolean-network bn #:headers #f)
|
||||
'((#f #f #t #f) (#f #t #t #t) (#t #f #f #f) (#t #t #f #t)))))
|
||||
|
||||
|
||||
;;; ===================================
|
||||
;;; Constructing functions and networks
|
||||
;;; ===================================
|
||||
|
|
@ -530,6 +806,11 @@
|
|||
(let ([func (table->function/list table)])
|
||||
(λ args (func args))))
|
||||
|
||||
(module+ test
|
||||
(let ([negation (table->function '((#t #f) (#f #t)))])
|
||||
(check-true (negation #f))
|
||||
(check-false (negation #t))))
|
||||
|
||||
;;; Like table->function, but the produced function accepts a single
|
||||
;;; list of arguments instead of individual arguments.
|
||||
(define (table->function/list table)
|
||||
|
|
@ -538,6 +819,11 @@
|
|||
(let-values ([(x fx) (split-at-right line 1)])
|
||||
(values x (car fx))))))
|
||||
|
||||
(module+ test
|
||||
(let ([negation/list (table->function/list '((#t #f) (#f #t)))])
|
||||
(check-true (negation/list '(#f)))
|
||||
(check-false (negation/list '(#t)))))
|
||||
|
||||
;;; Given a table like the one produced by tabulate-network,
|
||||
;;; constructs a Boolean network having this behaviour. If headers is
|
||||
;;; #t, considers that the first element of the list are the headers
|
||||
|
|
@ -575,13 +861,37 @@
|
|||
;; Construct the network.
|
||||
(make-network-from-functions (map cons var-names funcs)))
|
||||
|
||||
(module+ test
|
||||
(let* ([n (table->network '((x1 x2 f1 f2)
|
||||
(#f #f #f #f)
|
||||
(#f #t #f #t)
|
||||
(#t #f #t #f)
|
||||
(#t #t #t #t)))]
|
||||
[f1 (hash-ref n 'x1)]
|
||||
[f2 (hash-ref n 'x2)])
|
||||
(check-false (f1 (make-state '((x1 . #f) (x2 . #f)))))
|
||||
(check-false (f1 (make-state '((x1 . #f) (x2 . #t)))))
|
||||
(check-true (f1 (make-state '((x1 . #t) (x2 . #f)))))
|
||||
(check-true (f1 (make-state '((x1 . #t) (x2 . #t)))))
|
||||
|
||||
(check-false (f2 (make-state '((x1 . #f) (x2 . #f)))))
|
||||
(check-true (f2 (make-state '((x1 . #f) (x2 . #t)))))
|
||||
(check-false (f2 (make-state '((x1 . #t) (x2 . #f)))))
|
||||
(check-true (f2 (make-state '((x1 . #t) (x2 . #t)))))))
|
||||
|
||||
;;; Returns the n-th Cartesian power of the Boolean domain: {0,1}^n.
|
||||
(define (boolean-power n) (apply cartesian-product (make-list n '(#f #t))))
|
||||
|
||||
(module+ test
|
||||
(check-equal? (boolean-power 2) '((#f #f) (#f #t) (#t #f) (#t #t))))
|
||||
|
||||
;;; Like boolean-power, but returns a stream whose elements the
|
||||
;;; elements of the Cartesian power.
|
||||
(define (boolean-power/stream n) (apply cartesian-product/stream (make-list n '(#f #t))))
|
||||
|
||||
(module+ test
|
||||
(check-equal? (stream->list (boolean-power/stream 2)) '((#f #f) (#f #t) (#t #f) (#t #t))))
|
||||
|
||||
;;; Returns the stream of the truth tables of all Boolean functions of
|
||||
;;; a given arity.
|
||||
;;;
|
||||
|
|
@ -599,6 +909,11 @@
|
|||
(define (enumerate-boolean-functions n)
|
||||
(stream-map table->function (enumerate-boolean-tables n)))
|
||||
|
||||
(module+ test
|
||||
(let ([f1 (stream-first (enumerate-boolean-functions 1))])
|
||||
(check-false (f1 #f))
|
||||
(check-false (f1 #t))))
|
||||
|
||||
;;; Returns the stream of all Boolean functions of a given arity. As
|
||||
;;; different from the functions returned by
|
||||
;;; enumerate-boolean-functions, the functions take lists of arguments
|
||||
|
|
@ -608,6 +923,11 @@
|
|||
(define (enumerate-boolean-functions/list n)
|
||||
(stream-map table->function/list (enumerate-boolean-tables n)))
|
||||
|
||||
(module+ test
|
||||
(let ([f1/list (stream-first (enumerate-boolean-functions/list 1))])
|
||||
(check-false (f1/list '(#f)))
|
||||
(check-false (f1/list '(#t)))))
|
||||
|
||||
|
||||
;;; =============================
|
||||
;;; Random functions and networks
|
||||
|
|
@ -621,13 +941,26 @@
|
|||
(for/list ([i inputs] [o outputs])
|
||||
(append i (list (num->bool o)))))
|
||||
|
||||
(module+ test
|
||||
(check-equal? (random-boolean-table 2) '((#f #f #t) (#f #t #t) (#t #f #f) (#t #t #f))))
|
||||
|
||||
;;; Generates a random Boolean function of arity n.
|
||||
(define random-boolean-function (compose table->function random-boolean-table))
|
||||
|
||||
(module+ test
|
||||
(let ([f (random-boolean-function 2)])
|
||||
(check-true (f #f #f)) (check-false (f #f #t))
|
||||
(check-true (f #t #f)) (check-false (f #t #t))))
|
||||
|
||||
;;; Like random-boolean-function, but the constructed function takes a
|
||||
;;; list of arguments.
|
||||
(define random-boolean-function/list (compose table->function/list random-boolean-table))
|
||||
|
||||
(module+ test
|
||||
(let ([f (random-boolean-function/list 2)])
|
||||
(check-false (f '(#f #f))) (check-true (f '(#f #t)))
|
||||
(check-true (f '(#t #f))) (check-false (f '(#t #t)))))
|
||||
|
||||
;;; Generates a random function accepting a state over the domains
|
||||
;;; given by arg-domains and producing values in func-domain.
|
||||
(define (random-function/state arg-domains func-domain)
|
||||
|
|
@ -640,6 +973,25 @@
|
|||
(define (random-boolean-function/state args)
|
||||
(random-function/state (make-boolean-domains args) '(#f #t)))
|
||||
|
||||
(module+ test
|
||||
(test-begin
|
||||
(define f (random-boolean-function/state '(x1 x2)))
|
||||
(check-equal? (tabulate-state/boolean f '(x1 x2))
|
||||
'((x1 x2 f) (#f #f #f) (#f #t #f) (#t #f #t) (#t #t #f)))
|
||||
(check-equal? (tabulate-state/boolean f '(x1 x2) #:headers #f)
|
||||
'((#f #f #f) (#f #t #f) (#t #f #t) (#t #t #f)))
|
||||
(define bn (random-boolean-network/vars 3))
|
||||
(check-equal? (tabulate-boolean-network bn)
|
||||
'((x0 x1 x2 f-x0 f-x1 f-x2)
|
||||
(#f #f #f #t #f #f)
|
||||
(#f #f #t #t #t #f)
|
||||
(#f #t #f #f #t #f)
|
||||
(#f #t #t #t #f #t)
|
||||
(#t #f #f #t #f #f)
|
||||
(#t #f #t #f #t #t)
|
||||
(#t #t #f #t #f #f)
|
||||
(#t #t #t #f #t #t)))))
|
||||
|
||||
;;; Generates a random network from the given domain mapping.
|
||||
(define (random-network domains)
|
||||
(for/hash ([(x x-dom) (in-hash domains)])
|
||||
|
|
|
|||
Loading…
Reference in a new issue