Create a special "Cash in transit" account in CoA and use this as "other side" in postings. in General Journal(s), you will need 2 lines for each transaction: Line 1: type BankAccount , No Acc1 Cr Amt $100 balance type GL, balance # this "CashInTransit" acc # Line 2: type BankAccount , No Acc2 Db Amt $100 balance type GL, balance # this "CashInTransit" acc # Intermediate account is necessary because NAV doesn't allow Type=BankAcc both in AccountType and BalanceAccountType. To distinguish such transactions, create some special GL Journal Batch(es), better with their own NoSeries.
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