Thank you for your suggestion！
在 2015年4月18日星期六 UTC+8下午11:37:17，Jimmy Eng写道： > > 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 <[email protected] <javascript:>> > 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 <[email protected]> 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]. >>>> 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.
