Okay, I just started a big pano with the custom temp directory set to 
default and here is ls -l /tmp and ls -l in the directory where all of the 
intermediate files are being put when I run out of disk space (like ya all 
said the intermediate files go in the directory the images are in:

a side note- I had to leave for work so I left it running figuring it would 
just pause when I got the notice that disk space was low. I got home and 
the panorama was complete. So it looks as if I found a bug that in my case 
did not matter. Anyways here is the outputs of ls -l after I restart 
stitching and wait for the low disk space error to occur I also did df for 
the drives too:

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