Consider updating to "comet.2015011.win64.exe" from "comet_binaries_2015011.zip" as searches should run faster. The parameters file will be slightly changed though so keep that in mind. Good luck.
On Sat, Apr 18, 2015 at 2:17 AM, c qin <cco...@gmail.com> wrote: > 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 <cco...@gmail.com> 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 <cco...@gmail.com> 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 <cco...@gmail.com> 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 spctools-discu...@googlegroups.com. >>>>>>> To post to this group, send email to spctools...@googlegroups.com. >>>>>>> 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 spctools-discu...@googlegroups.com. >>>>> To post to this group, send email to spctools...@googlegroups.com. >>>>> 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 spctools-discu...@googlegroups.com. >>> To post to this group, send email to spctools...@googlegroups.com. >>> 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 spctools-discuss+unsubscr...@googlegroups.com. > To post to this group, send email to spctools-discuss@googlegroups.com. > 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. 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