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I came into contact with z/OS, VSAM and the likes, but I couldn't see how they did relational queries (joins), all I remember is that every file is row based structured columns that doesn't require parsing (and language integrated in the case of COBOL). What am I missing ?


z/OS is their mainframe OS. The AS/400 is something different. Different hardware and different software.


The OS/400 operating system ran on AS/400 computers. The successor to OS/400 is the i system:

https://en.wikipedia.org/wiki/IBM_i




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