During an election debate yesterday, Rouhani took the rare step of criticising the elite Revolutionary Guards for the provocative messages they wrote on ballistic missiles before testing them.
"We saw how they wrote slogans on missiles and showed underground (missile) cities to disrupt the JCPOA (nuclear deal)," he said during the debate, which comes ahead of the May 19 election.
Armed Forces spokesman General Masoud Jazayeri responded that the missile programme had "no connection" to the nuclear deal.
"The existence of underground missile sites are an important deterrent factor against the sworn enemies of the Islamic Republic of Iran and the nation," Jazayeri added.
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Iran says its ballistic missile tests are part of its legitimate defence programme and are not a violation of the 2015 deal, under which it agreed to curb its nuclear programme in exchange for an end to certain sanctions.
All six candidates in the presidential election support the nuclear deal since it had the tacit backing of supreme leader Ayatollah Ali Khamenei, but Rouhani has accused his conservative opponents of trying to derail it during negotiations.
"Tell people clearly, what will you do regarding (the nuclear deal)? You were all against it," he said during the televised debate.
"When (US President Donald) Trump took office you were celebrating because he said he would tear up the deal. Today people should know whether sanctions and confrontation are coming back or not," he added.
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