Tomas & Lindsay, MzXMLReadTask is assuming a precision of 32 bits for some reason. This file has 64 bit precision and so the data is being garbled by the import. I have attached a patch which should remedy this problem. The mzdata and MzML readers appear to check the precision value properly.
Thomas McGrew Data Analyst/Programmer Bindley Bioscience Center @ Purdue University On Sun, Jun 12, 2011 at 9:55 PM, Lindsay Edwards <[email protected]>wrote: > Hi Tomas, > > Here's one: > > http://dl.dropbox.com/u/1998606/7053.mzXML.mzxml > > The file was generated using Thermo Xcalibur. > > L. > > _________ > > > > *Dr Lindsay Edwards MSc DPhil (Oxon) MSB > *____________________________________________ > Lecturer and Theme 5 Coordinator | *University of Tasmania *School of > Medicine > Honorary Member and Fellow | *Menzies Research Institute* > Visiting Researcher | *University of Oxford* > *Private Bag 34, Medical Sciences 1, Hobart 7001, TAS* > *Ph: *+61 (3) 6226 2677 *Email:* *[email protected]* > *PubMed - "Edwards L AND (Clarke K OR Jobson S)"* > **_____________________________________________ > > On 13/06/2011, at 10:15 AM, Tomas Pluskal wrote: > > Hi Lindsay, > > Can you please send an example of such mzXML file? > What software did you use to produce the mzXML? > > Best regards, > > Tomas > > On Jun 12, 2011, at 5:43 AM, Lindsay Edwards wrote: > > I am trying to analyse data from our Orbitrap using mzMine. > > When loading mzXML files, it looks as thought the m/z and intensity data > have got scrambled (screenshot attached). > > FYI, the data is centroided. Any ideas how to get round this? > > In the meantime I am going to load RAW files using mzMine running on > Virtual Box. > > Thanks for your help, > > Lindsay. > > > -- > Dr Lindsay Edwards MSc DPhil (Oxon) MSB > Lecturer in Biomedical Science, School of Medicine > University of Tasmania > Visiting Researcher, University of Oxford > *Email:* [email protected] > *Ph: *+61 (3) 6226 2677 > <http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?dispmax=50&db=PubMed&cmd=Search&term=Edwards-L%20AND%20(Jobson-S%20OR%20Clarke-K)&doptcmdl=DocSum> > *Mail: Private Bag 34, Medical Sciences 1* > Hobart 7000, Tasmania > PubMed - "Edwards L AND (Clarke K OR Jobson S)" > > <Screen shot 2011-06-12 at 6.42.24 AM.png> > > > > > > > > ------------------------------------------------------------------------------ > EditLive Enterprise is the world's most technically advanced content > authoring tool. Experience the power of Track Changes, Inline Image > Editing and ensure content is compliant with Accessibility Checking. > > http://p.sf.net/sfu/ephox-dev2dev_______________________________________________ > Mzmine-devel mailing list > [email protected] > https://lists.sourceforge.net/lists/listinfo/mzmine-devel > > > =============================================== > Tomas Pluskal > G0 Cell Unit, Okinawa Institute of Science and Technology > 1919-1 Tancha, Onna-son, Okinawa 904-0412, Japan > TEL: +81-98-966-8684 > > > > > > > > ------------------------------------------------------------------------------ > EditLive Enterprise is the world's most technically advanced content > authoring tool. Experience the power of Track Changes, Inline Image > Editing and ensure content is compliant with Accessibility Checking. > http://p.sf.net/sfu/ephox-dev2dev > _______________________________________________ > Mzmine-devel mailing list > [email protected] > https://lists.sourceforge.net/lists/listinfo/mzmine-devel > >
mzmine_mzxml_fix.patch
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