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EasierMgf vs 0.1
EasierMgf has been coded in Python
by Joaquin Abian at LP-CSIC/UAB ( lp.csic@uab.cat )
December 2013
EasierMgf Converts RAW Thermo Files into MGF files
from LTQ XL, LTQ Velos and Orbitraps.
For this it uses four different converters:
***Extract_msn (v 4.0)****
Compatible with Thermo Xcalibur 2.0.7
(LTQ XL)
To make this converter work, the folder exe_extract_msn\ must contain the extract_msn executable (ver. 4.0) and needed libraries:
- extract_msn.exe (extract_msn ver. 4.0) (http://sjsupport.thermofinnigan.com/public/index_download_customer.asp)
- Fileio.dll
- Fregistry.dll
- UnifiedFile.dll (ver. 2007) (http://www.matrixscience.com/help/instruments_xcalibur.html#MSF)
All those files can be obtained from a Thermo Xcalibur 2.0.7 installation (Folder C:\Xcalibur\system\programs),
altought some of them (Fileio.dll , Fregistry.dll) can be obtained from MSFileReader package, which can be downloaded from:
- http://sjsupport.thermofinnigan.com/download/files/MSFileReaderSetup.zip
@TO-DO
****Extract_msn_com (v 5.0)****
To make this converter work, the folder exe_extract_msn_com\ must contain the extract_msn_com executable and needed libraries:
- extract_msn_com.exe (extract_msn ver. 5.0)
- UnifiedFile.dll (ver. 2008)
Both files can be downloaded in a zip from Thermo webpage at:
- http://sjsupport.thermofinnigan.com/public/detail.asp?id=626
And the direct download url is:
- http://sjsupport.thermofinnigan.com/download/files/ExtractMSnCom.zip
To run the program it is also necessary to install following Thermo libraries provided by Xcalibur or MSFileReader:
- Fileio.dll
- Fregistry.dll
- XRawfile2.dll
MSFileReader is a standalone installation of XRawfile2.dll (for Xcalibur), which permits
programmatic access of Thermo data files via a COM interface.
This program can be downloaded from:
- http://sjsupport.thermofinnigan.com/public/detail.asp?id=703
And the direct download url is:
- http://sjsupport.thermofinnigan.com/download/files/MSFileReaderSetup.zip
@TO-DO
****ReAdW******
To make this converter work, the folder exe_readw\ must contain the ReAdW executable (ver. 4.3.1, 2009; available from the Trans-Proteome Pipeline) and needed libraries:
- ReAdW.exe
- zlib1.dll
ReAdW Authors:
Natalie Tasman (SPC/ISB), with Jimmy Eng, Brian Pratt, and Matt Chambers, based on orignal work by Patrick Pedriolli.
More information:
http://tools.proteomecenter.org/wiki/index.php?title=Software:ReAdW
Download from:
http://sourceforge.net/projects/sashimi/files/ReAdW%20%28Xcalibur%20converter%29/ReAdW-4.3.1/ReAdW-4.3.1.zip/download
zlib1.dll (vers 1.2.3) can be obtained from:
http://www.zlib.net/
@TO-DO
****ReAdW4Mascot2******
To make this converter work, the folder exe_readw4mascot2\ must contain the NIST ReAdw4Mascot2 executable (ver. 20091016a; available from the NIST MSQC Pipeline) and needed libraries:
- ReAdw4Mascot2.exe (ver. 20091016a)
- zlib1.dll
ReAdW4Mascot2 Author:
The program belongs to Patrick Pedrioli.
ReAdW4Mascot2 is part of the NIST MSQC Pipeline, which can be downloaded from:
http://peptide.nist.gov/software/nist_msqc_pipeline/NIST_MSQC_Pipeline.html
zlib1.dll (vers 1.2.3) can be obtained from:
http://www.zlib.net/
@TO-DO
*** EasierMgf Licence ***
This program is free software; you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Free Software Foundation; either version 3 of the License, or
(at your option) any later version.
This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU General Public License for more details.
You should have received a copy of the GNU General Public License
along with this program; if not, write to the Free Software
Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston,
MA 02110-1301, USA.
See LICENCE.txt for more details about licensing of the software (GPL v3).
