I trying to start using MZmatch and wanted to start off simply but have already hit a problem. I'm trying to convert thermo .RAW files to mzML files using the code:
Windows batch-file:
SET JAVA=java -cp mzmatch.jar -da -dsa -Xmn1g -Xms1425m -Xmx1425m -Xss128k -XX:+UseParallelGC -XX:ParallelGCThreads=10
REM extract all the mass chromatograms
%JAVA% mzmatch.ipeak.convert.ThermoToMzML -v -i test.RAW -o test\ -centroid -format mzML
I have a raw file named test in a sub-directory named test. My batch file is in my main directory. When I run the batch file a window pops up but a new file is not created. I'm sure it's something simple I'm doing wrong but can't work it out. Can anyone help?
Cheers,
Gavin.
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Hi,
I trying to start using MZmatch and wanted to start off simply but have already hit a problem. I'm trying to convert thermo .RAW files to mzML files using the code:
Windows batch-file:
SET JAVA=java -cp mzmatch.jar -da -dsa -Xmn1g -Xms1425m -Xmx1425m -Xss128k -XX:+UseParallelGC -XX:ParallelGCThreads=10
REM extract all the mass chromatograms
%JAVA% mzmatch.ipeak.convert.ThermoToMzML -v -i test.RAW -o test\ -centroid -format mzML
I have a raw file named test in a sub-directory named test. My batch file is in my main directory. When I run the batch file a window pops up but a new file is not created. I'm sure it's something simple I'm doing wrong but can't work it out. Can anyone help?
Cheers,
Gavin.