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fix: derived atom is not recomputed after its dependencies changed #2906 #2948

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Run time

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Job	Run time
test_matrix (5.7.2)	41s
test_matrix (5.6.3)	41s
test_matrix (5.5.4)	42s
test_matrix (5.4.5)	45s
test_matrix (5.3.3)	48s
test_matrix (5.2.2)	39s
test_matrix (5.1.6)	38s
test_matrix (5.0.4)	36s
test_matrix (4.9.5)	40s
test_matrix (4.8.4)	36s
test_matrix (4.7.4)	39s
test_matrix (4.6.4)	39s
test_matrix (4.5.5)	44s
test_matrix (4.4.4)	45s
test_matrix (4.3.5)	53s
test_matrix (4.2.3)	53s
test_matrix (4.1.5)	51s
test_matrix (4.0.5)	49s
test_matrix (3.9.7)	49s
test_matrix (3.8.3)	57s
	14m 45s