In fact, there is no error message, it was just stop and no changed when I click the "refresh". Because I attempt to repeat a process used the TPPv4.7.1 with comet2014010, as you said, I downloaded "comet_binaries_2014010.zip"and replaced the original comet.exe (C:\Inetpub\tpp-bin\) with comet.2014010.win64.exe from the zip,and rename it to "comet.exe". Surprisedly, as I restarted TPP and performed comet, it run well and completely! I clicked the "refresh" and it showed "search end" and "command successful"! Gratitude beyond words, you help me a lot!
在 2015年4月15日星期三 UTC+8下午10:24:45，Jimmy Eng写道： > > Unless you post an error or log message or more descriptive information, > no one here will have any idea why your job "seems to be dead again". But > you can try the following to see if it addresses the issues. > > Try setting "spectrum_batch_size = 3000" and run again and see if that > changes anything. > > Another option to try is to update your Comet binary to the latest version > 2015.01 rev. 1 as the latest TPP distributes version 2014.02 rev. 2. Grab > the file "comet_binaries_2015011.zip" from > http://sourceforge.net/projects/comet-ms/files/. I believe the binary > you need to replace is at c:\inetpub\tpp-bin\comet.exe. With this 2015.01 > version, use these settings: > > fragment_bin_tol = 0.01 > use_sparse_matrix = 1 > spectrum_batch_size = 25000 > > Good luck. > > On Wed, Apr 15, 2015 at 2:01 AM, c qin <[email protected] <javascript:>> > wrote: > >> Thank you so much. >> It is high resolution data. it is the first time I use TPP and Comet, and >> I just do this under the guidance of the article, the parameter file is >> dowloaded from PRIDE database and the data set identifier is PXD001126. >> >> fragment_bin_tol = 0.1 >> >> use_sparse_matrix = 0 >> >> spectrum_batch_size = 5000 >> >> >> I perform TPP on win7(64bit) with 16G memory... >> >> 在 2015年4月15日星期三 UTC+8下午1:08:02，Jimmy Eng写道： >>> >>> Is this high-res MS/MS data? If so, what are your settings for the >>> following Comet search parameters? >>> >>> fragment_bin_tol >>> use_sparse_matrix >>> spectrum_batch_size >>> >>> And how much memory (RAM) does your computer have? >>> >>> - Jimmy >>> >>> >>> On Tue, Apr 14, 2015 at 7:47 PM, c qin <[email protected]> wrote: >>> >>>> Thanks for your attention >>>> now I can kill and delete my jobs,but when I start an other new job,it >>>> seems to be dead again,and the output file size stop being increased. >>>> I`m sure it is not finished because the output file does not reach >>>> expected size like my reference artical showed... >>>> Do you encounter this problem？ >>>> >>>> >>>> 在 2015年4月13日星期一 UTC+8下午12:35:43，andyzcq写道： >>>>> >>>>> Hi, I came across this issue and solved it in the following way. >>>>> Find the TPP username folder (normally should >>>>> be C:\inetpub\tpp-bin\users\guest), and delete the file the name of >>>>> which contains the date of task. >>>>> Note: do not delete .jobs and .password files. >>>>> Hope it helps. >>>>> >>>>> On Sun, Apr 12, 2015 at 3:57 PM, c qin <[email protected]> wrote: >>>>> >>>>>> >>>>>> *Hello,* >>>>>> >>>>>> Can I ask a question about TPP(Trans Proteomic Pipeline)? >>>>>> >>>>>> I run a job on the web of TPP several days ago,and it is running in >>>>>> Database Search tab of Analysis Pipeline (Comet).However, until now,it >>>>>> is >>>>>> still in the running…… >>>>>> My data size is about 3GB,and I do not feel it is too big. When I >>>>>> click the “kill job” button,a messages show on orange window and tell >>>>>> that “Unable >>>>>> to kill command 3340! ()” >>>>>> I have no idea what should I do to finish(continue or kill) my job... >>>>>> >>>>>> >>>>>> Thank you >>>>>> c qin >>>>>> >>>>>> -- >>>>>> You received this message because you are subscribed to the Google >>>>>> Groups "spctools-discuss" group. >>>>>> To unsubscribe from this group and stop receiving emails from it, >>>>>> send an email to [email protected]. >>>>>> To post to this group, send email to [email protected]. >>>>>> Visit this group at http://groups.google.com/group/spctools-discuss. >>>>>> For more options, visit https://groups.google.com/d/optout. >>>>>> >>>>> >>>>> -- >>>> You received this message because you are subscribed to the Google >>>> Groups "spctools-discuss" group. >>>> To unsubscribe from this group and stop receiving emails from it, send >>>> an email to [email protected]. >>>> To post to this group, send email to [email protected]. >>>> Visit this group at http://groups.google.com/group/spctools-discuss. >>>> For more options, visit https://groups.google.com/d/optout. >>>> >>> >>> -- >> You received this message because you are subscribed to the Google Groups >> "spctools-discuss" group. >> To unsubscribe from this group and stop receiving emails from it, send an >> email to [email protected] <javascript:>. >> To post to this group, send email to [email protected] >> <javascript:>. >> Visit this group at http://groups.google.com/group/spctools-discuss. >> For more options, visit https://groups.google.com/d/optout. >> > > -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To unsubscribe from this group and stop receiving emails from it, send an email to [email protected]. To post to this group, send email to [email protected]. Visit this group at http://groups.google.com/group/spctools-discuss. For more options, visit https://groups.google.com/d/optout.
