Pyongyang says Fumio Kishida conveyed his intention to meet the North Korean leader soon through ‘another channel’.
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The country is stepping up its development of more technologically-advanced weaponry capable of striking further afield.
Pyongyang has broken with much of its inter-Korean policy in recent years and ramped up weapons testing.
Launches come days after South Korea and US wrapped up military drills Pyongyang sees as an invasion rehearsal.