[spctools-discuss] Trouble compiling with pwiz to read mzXML or mzML files

2010-12-10 Thread GATTACA
Hello. I'm trying to compile a simple C++ program to read in an mzXML file and print to the screen the spectrum of a given scan number. I'm using proteowizard (revision 2414) to do this but without much luck. There seems to be a problem with linking the files. When I compile my program with this

Re: [spctools-discuss] Trouble compiling with pwiz to read mzXML or mzML files

2010-12-10 Thread Brian Pratt
Are you using the TPP build system, and its copy of ProteoWizard, or are you using the official ProteoWizard build system? If it's the latter you might be better asking on the proteowizard support list. Brian On Fri, Dec 10, 2010 at 6:57 AM, GATTACA dfer...@umich.edu wrote: Hello. I'm trying

Re: [spctools-discuss] pepXML and protXML format

2010-12-10 Thread Joe Slagel
Christine, The new versions are now in place, thanks for bringing it to our attention. By the way, the latest version of pepXML is 117. As to the validation -- I recently ran into the same issue and will take a look at it. I noticed it with xmlint, and I've also encountered errors using

[spctools-discuss] correct syntax for command line --find peptides using msINSPECT

2010-12-10 Thread Samuel Bennett
I would like to find features (small molecules) for my *.mzXML.inspect files by batch, yet I can't quite get the syntax of the for command right. Here's what I have typed: for %%f in (C:\Users\bennetsa\Documents\Obesity-CKD_Project\Metabolite_Data_110810\*.mzXML.inspect) do java -Xmx2048m -jar