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Simply nothing happens when bootmagic will start linux.
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Did you make a boot disk? If you did, boot to that. Does it work? If linux boots then you probably just have a boot loader config problem. If the boot floppy fails, either your linux is hosed or you've made partition changes that affect partition numbering.
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How do i tell not to install i mbr. I dont think i have seen this posibility.
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I don't remember the exact point of the install but iirc it's fairly obvious. It asks you where you want to install the bootloader (or lilo or grub - I don't remember the exact phrasing). You should have 3 choices: 1) Install in MBR (don't choose this), 2) Install in boot partition/linux partition (choose this), 3) Don't install (for booting from floppy). Again, choose #2.
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In my first post you ca se the order of my partitions.
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Ok, I see the order now. Is the 50mb primary and the rest logical?
Also, why is your swap partition 16Gb? Your swap partition is only for paging - not for storing apps. As a rule of thumb, it should be 2x physical RAM. You have 8GB of RAM? And 1GB is enough for a bare-bones linux partition, but probably not enough if you want to run current window managers (Gnome, KDE, etc) and a lot of programs. I'm guessing you'll want to reallocate that space.
As far as your original problem goes, since Boot Magic is pretty idiot-proof (no files to edit -just point and click) then my only advice is to reinstall and put grub/lilo on the boot partition and see if that helps.