by
tlahren » Tue Mar 27, 2012 12:13 am
I think Bigbear might be right about the corrupt tune file. I've had this happen a number of times. Try restoring a previous tune. I think these are the directions to follow: "File" - "restore previous tune" then there should be a bunch of tune files starting with the type of tune (I think) Atune_ then the date and time I think. Or maybe some other order. I'm not in the lab right now so I don't remember all the specifics. This is easy to try to see if it's a bad tune file. Load one from a point in the past where you know you were acquiring good data. Then try to autotune.
Also, regarding the rest of the info Bigbear asked about; did you try to turn the calibration (PFTBA) valve OFF and look at mass 28? As he said before, this should rule out a leak if it's low. Based on your ratios you listed it looks like you just might have poor ion transmission due to a corrupt tune file (i.e., there are no significant abundances for any ion especially 69 m/z thus the weird and wacky ratios). Let us know any other info you can provide. If none of this works, be sure and post abundances for relevant peaks in the PFTBA tune as well as the N2 peak.