Dear Dr. Tomas, 4 hours is too long. But you forgot to write how many samples you load at once. I load 20 samples at once (4 treatments X 5 replications). Is it possible to run one treatment (5 samples) at a time and later combine all (like metaXCMS)? Use more memory or optimize your parameters (noise level, m/z tolerance etc.) to reduce the amount of noise peaks produced. Max RAM in my computer is 4 gb and i have allocated 3 gb for mzmine. I will try optimizing noise level and m/z tolerance. At present I am using noise level= 5000, and m/z tolerance=10 ppm (orbitrap with 60,000 mass resolution). Thank you for the quick reply with kind regards
Raghavendra Gunnaiah Ph.D Scholar R1-013,Department of Plant Science McGill University Macdonald Campus 21,111 Lakeshore Road Ste. Anne de Bellevue, QC H9X 3V9 ________________________________ From: Tomas Pluskal [plus...@oist.jp] Sent: July 3, 2012 9:27 PM To: Developer discussion Cc: Raghavendra Gunnaiah Subject: Re: [Mzmine-devel] project opening error Hi Raghavendra, My questions 1. Is this long time taking process normal? If not, what changes I have to make in the log file 4 hours is too long. But you forgot to write how many samples you load at once. 2. How can I overcome the above error? Use more memory or optimize your parameters (noise level, m/z tolerance etc.) to reduce the amount of noise peaks produced. 3. I would like to use Wavelets (XCMS) for deconvolution. I have given correct path to R (2.15.1) and have installed xcms 1.33.13 (the latest available version in bioconductor). But the method asks for xcms version 1.33.2 or later. Where can I find xcms 1.33.2 Chris might take a look at this.. Best regards, Tomas =============================================== Tomáš Pluskal G0 Cell Unit, Okinawa Institute of Science and Technology Graduate University 1919-1 Tancha, Onna-son, Okinawa 904-0495, Japan TEL: +81-98-966-8684 Fax: +81-98-966-2890 ------------------------------------------------------------------------------ Live Security Virtual Conference Exclusive live event will cover all the ways today's security and threat landscape has changed and how IT managers can respond. Discussions will include endpoint security, mobile security and the latest in malware threats. http://www.accelacomm.com/jaw/sfrnl04242012/114/50122263/ _______________________________________________ Mzmine-devel mailing list Mzmine-devel@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/mzmine-devel
