Beynon, Rob wrote:
I *think* I set up append properly... and the output file
would be typically 1-2MB (quite small)
I always think exposing my code in public is the equivalent
of the dream where you're walking down a street naked, but here goes...
Heh. :) I know exactly what you mean. But you have nothing to be nervous
about, your script looks fine, and you are opening the file correctly
for appending. The only thing I can see is that you don't need to open,
create, and close the file first; just the "open for append" command
will create it at the same time it opens it. But that's a very minor
thing and doesn't interfere with the speed issue at all.
I'm curious to know if Dick's array solution is any faster, if you get a
chance to try it. His stuff is always genius.
ON mouseUp
ask file "Save as..."
put it into outputFile
open file outputFile for write
close file outputFile -- create empty file if preexists
open file outputFile for append
put the number of lines in field "massList" into peptides
put "Processing " & peptides & " masses, please wait..." into field "Output"
put the long time into field "Start"
put field "ppm" into ppm
REPEAT for each line pepMass in field "massList"
write "NEW SEARCH, MASS = " & pepMass & " at " & ppm & " ppm error" &
return to file outputFile
put pepMass * ppm/1000000 into massError
REPEAT for each line peptide in seqDB
put the third word of peptide into dbMass
IF abs(pepMass-dbMass) <= massError THEN write peptide & "K" & tab &
dbMass-pepMass & return to file outputFile
END REPEAT
write "====================" & return to file outputFile
END REPEAT
close file outputFile
put the long time into field "Stop"
END mouseUp
________________________________________
Prof R J Beynon[h]
Proteomics and Functional Genomics Group
Faculty of Veterinary Science
University of Liverpool
Crown Street, Liverpool L69 7ZJ
________________________________________
Phone: +44 151 794 4312
Fax: +44 151 794 4243
Email: [EMAIL PROTECTED]
http://www.liv.ac.uk/pfg
________________________________________
This email was sent on Tue, 17 Jul, 2007 at 8:03 AM.
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--
Jacqueline Landman Gay | [EMAIL PROTECTED]
HyperActive Software | http://www.hyperactivesw.com
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