https://sourceforge.net/p/detectmite/activity/Recent activity for detectMITEenFri, 22 Apr 2022 15:11:47 -0000https://sourceforge.net/p/detectmite/tickets/4/error when runningAuriel XueFri, 22 Apr 2022 15:11:47 -0000https://sourceforge.net/p/detectmite/tickets/4/https://sourceforge.net/p/detectmite/tickets/3/?limit=25#c88d/8ccb/ce16/046a/8592Hm okay, I'll try that. Thanks!!Virginia MarkhamSun, 03 Feb 2019 20:11:27 -0000https://sourceforge.net/p/detectmite/tickets/3/?limit=25#c88d/8ccb/ce16/046a/8592https://sourceforge.net/p/detectmite/tickets/3/?limit=25#c88d/8ccb/ce16/046aIn your case, this indicates that no candidate MITEs was detected from your input. I guess that you may run detectMITE using a small fasta file for test, a small input often results in nothing detected. You could run detectMITE with Arabidopsis genome to test whether it could run correctly. Thanks for your interest in detectMITE!Congting YeSun, 03 Feb 2019 05:58:34 -0000https://sourceforge.net/p/detectmite/tickets/3/?limit=25#c88d/8ccb/ce16/046ahttps://sourceforge.net/p/detectmite/tickets/3/?limit=25#c88d/8ccb/ce16Thanks so much for your response! Sorry, I should have been more clear. This is my first time posting on sourceforge, apologies for my mistakes. That error you mention ( "Cluster = fastaread(['./result/' ...") is from Juan C. I did not get that error. In fact, I did not get any error message at all. But like Juan C., only my first few iterations are giving clusters. I have 15 iterations and the first 8 look good (for example: "80597 finished 51831 clusters"), but the last 7 are not giving results...Virginia MarkhamSat, 02 Feb 2019 20:11:31 -0000https://sourceforge.net/p/detectmite/tickets/3/?limit=25#c88d/8ccb/ce16https://sourceforge.net/p/detectmite/tickets/3/?limit=25#c88d/8ccb/ce16Thanks so much for your response! Sorry, I should have been more clear. This is my first time posting on sourceforge, apologies for my mistakes. That error you mention ( "Cluster = fastaread(['./result/' ...") is from Juan C. I did not get that error. In fact, I did not get any error message at all. But like Juan C., only my first few iterations are giving clusters. I have 15 iterations and the first 8 look good (for example: "80597 finished 51831 clusters"), but the last 7 are not giving results...Virginia MarkhamSat, 02 Feb 2019 20:10:34 -0000https://sourceforge.net/p/detectmite/tickets/3/?limit=25#c88d/8ccb/ce16https://sourceforge.net/p/detectmite/tickets/3/?limit=25#c88d/8ccb/ce16Thanks so much for your response! Sorry, I should have been more clear. This is my first time posting on sourceforge, apologies for my mistakes. That error you mention ( "Cluster = fastaread(['./result/' ...") is from Juan C. I did not get that error. In fact, I did not get any error message at all. But like Juan C., only my first few iterations are giving clusters. I have 15 iterations and the first 8 look good (for example: "80597 finished 51831 clusters"), but the last 7 are not giving results...Virginia MarkhamSat, 02 Feb 2019 20:08:32 -0000https://sourceforge.net/p/detectmite/tickets/3/?limit=25#c88d/8ccb/ce16https://sourceforge.net/p/detectmite/tickets/3/?limit=25#c88d/8ccb/ce16Thanks so much for your response! Sorry, I should have been more clear. This is my first time posting on sourceforge, apologies for my mistakes. That error you mention ( "Cluster = fastaread(['./result/' ...") is from Juan C. I did not get that error. In fact, I did not get any error message at all. But like Juan C., only my first few iterations are giving clusters. I have 15 iterations and the first 8 look good (for example: "80597 finished 51831 clusters"), but the last 7 are not giving results...Virginia MarkhamSat, 02 Feb 2019 20:07:57 -0000https://sourceforge.net/p/detectmite/tickets/3/?limit=25#c88d/8ccb/ce16https://sourceforge.net/p/detectmite/tickets/3/?limit=25#c88d/8ccbHi Virginia Markham, According to the error info you post, I figure out that you were using an old version of detectMITE. The code "Cluster = fastaread(['./result/' genome '.clusteredCandidateTE' num2str(count) '.fasta.clstr']);" is at line 60 of the old verion (such as detectMITE.20160818.tar.gz), but at line 62 of the newest version. Please go the link (https://sourceforge.net/projects/detectmite/files/detectMITE.20170425.tar.gz/download) to download the newest version. Error using fastaread (line...Congting YeSat, 02 Feb 2019 13:19:47 -0000https://sourceforge.net/p/detectmite/tickets/3/?limit=25#c88d/8ccbhttps://sourceforge.net/p/detectmite/tickets/3/?limit=25#c88dHi, I'm still getting this error even though I'm quite sure I'm using the newest version of detectMITE. It gives results for only the first 8 out of 15 iterations. Any idea what the problem might be? Thanks!! I'm running this on our server which is SUSE Linux Enterprise Server 12 SP3, and I'm using Matlab version R2016a and cd-hit v4.6.1-2012-08-27.Virginia MarkhamTue, 29 Jan 2019 03:34:54 -0000https://sourceforge.net/p/detectmite/tickets/3/?limit=25#c88dhttps://sourceforge.net/p/detectmite/discussion/general/thread/e73d0ff8/?limit=25#f8d2FYI if you've got a problem with the program you could try submitting an issue under the "Tickets" tab. The developers appear to have answered those.Tim AmosThu, 18 Jan 2018 01:59:01 -0000https://sourceforge.net/p/detectmite/discussion/general/thread/e73d0ff8/?limit=25#f8d2https://sourceforge.net/p/detectmite/tickets/3/Error when runningCongting YeFri, 19 May 2017 01:05:34 -0000https://sourceforge.net/p/detectmite/tickets/3/https://sourceforge.net/p/detectmite/discussion/general/thread/e73d0ff8/?limit=25#9e34Apprixmated maximum memory consumption: 481M writing new database writing clustering information program completed ! Total CPU time 80287.80 Index exceeds matrix dimensions. Error in detectMITE (line 123) Sequence = genomeData(Number).Sequence(startPos:endPos); Error in do_MITE_detection (line 141) detectMITE(data_file,p_TIR_Len,p_TSD_minLen ,p_TSD_maxLen ,p_MITE_minLen ,p_MITE_maxLen ,p_FlankSeq_Len,genome,p_cpu); IdleTimeout has been reached. Parallel pool using the 'local' profile is shutting...shengweimaThu, 18 May 2017 12:27:26 -0000https://sourceforge.net/p/detectmite/discussion/general/thread/e73d0ff8/?limit=25#9e34https://sourceforge.net/p/detectmite/wiki/UpdateHistory/UpdateHistoryCongting YeTue, 25 Apr 2017 05:38:56 -0000https://sourceforge.net/p/detectmite/wiki/UpdateHistory/https://sourceforge.net/p/detectmite/wiki/User%2520Manual/User ManualCongting YeTue, 25 Apr 2017 05:37:18 -0000https://sourceforge.net/p/detectmite/wiki/User%20Manual/https://sourceforge.nethttps%3A//sourceforge.net/projects/detectmite/files/detectMITE.20170425.tar.gz/downloaddetectMITETue, 25 Apr 2017 05:30:02 -0000https://sourceforge.net/projects/detectmite/files/detectMITE.20170425.tar.gz/downloadhttps://sourceforge.net/p/detectmite/tickets/2/error when runningCongting YeFri, 31 Mar 2017 08:05:00 -0000https://sourceforge.net/p/detectmite/tickets/2/https://sourceforge.net/p/detectmite/tickets/3/?limit=25#7185/93a7Hello JuanC, The error is produced when some temporary file is empty (means no candidate...Congting YeFri, 31 Mar 2017 08:03:18 -0000https://sourceforge.net/p/detectmite/tickets/3/?limit=25#7185/93a7https://sourceforge.net/p/detectmite/wiki/User%2520Manual/User ManualCongting YeFri, 31 Mar 2017 07:54:19 -0000https://sourceforge.net/p/detectmite/wiki/User%20Manual/https://sourceforge.net/p/detectmite/wiki/UpdateHistory/UpdateHistoryCongting YeFri, 31 Mar 2017 07:51:21 -0000https://sourceforge.net/p/detectmite/wiki/UpdateHistory/https://sourceforge.nethttps%3A//sourceforge.net/projects/detectmite/files/ReadMe.txt/downloaddetectMITEFri, 31 Mar 2017 07:49:02 -0000https://sourceforge.net/projects/detectmite/files/ReadMe.txt/downloadhttps://sourceforge.nethttps%3A//sourceforge.net/projects/detectmite/files/detectMITE.20170331.tar.gz/downloaddetectMITEFri, 31 Mar 2017 07:49:02 -0000https://sourceforge.net/projects/detectmite/files/detectMITE.20170331.tar.gz/downloadhttps://sourceforge.net/p/detectmite/tickets/3/?limit=25#7185It seems like it is iterating through 8 candidates but from 4th on they are empty...JuanCThu, 30 Mar 2017 21:00:18 -0000https://sourceforge.net/p/detectmite/tickets/3/?limit=25#7185https://sourceforge.net/p/detectmite/tickets/3/?limit=25#7185It seems like it is iterating through 8 candidates but the from 4th on they are empty...JuanCThu, 30 Mar 2017 21:00:09 -0000https://sourceforge.net/p/detectmite/tickets/3/?limit=25#7185https://sourceforge.net/p/detectmite/tickets/3/?limit=25#45fbContent of one of the clstr file. >Cluster 0 0 149nt, >129|252|400|2... * >Cluster...JuanCThu, 30 Mar 2017 20:46:45 -0000https://sourceforge.net/p/detectmite/tickets/3/?limit=25#45fbhttps://sourceforge.net/p/detectmite/tickets/3/Error when runningJuanCThu, 30 Mar 2017 20:43:41 -0000https://sourceforge.net/p/detectmite/tickets/3/https://sourceforge.net/p/detectmite/wiki/User%2520Manual/User ManualCongting YeMon, 02 Jan 2017 03:06:11 -0000https://sourceforge.net/p/detectmite/wiki/User%20Manual/https://sourceforge.net/p/detectmite/wiki/User%2520Manual/User ManualCongting YeMon, 02 Jan 2017 02:41:47 -0000https://sourceforge.net/p/detectmite/wiki/User%20Manual/https://sourceforge.net/p/detectmite/tickets/2/?limit=25#11ef/f7e1/117b/bd58/08ddIt seems like your cd-hit didn't run correctly, and cd-hit didn't generate cluster...Congting YeThu, 01 Sep 2016 15:05:09 -0000https://sourceforge.net/p/detectmite/tickets/2/?limit=25#11ef/f7e1/117b/bd58/08ddhttps://sourceforge.net/p/detectmite/tickets/2/?limit=25#11ef/f7e1/117b/bd58I was able to correct it changing the lib in the matlab folder. Now I'm getting another...JuanCThu, 01 Sep 2016 13:19:10 -0000https://sourceforge.net/p/detectmite/tickets/2/?limit=25#11ef/f7e1/117b/bd58https://sourceforge.net/p/detectmite/tickets/2/?limit=25#11ef/f7e1/117bHi, in which folder do you create the link? Enviado desde Outlookhttp://aka.ms/weboutlook...JuanCThu, 01 Sep 2016 13:17:28 -0000https://sourceforge.net/p/detectmite/tickets/2/?limit=25#11ef/f7e1/117bhttps://sourceforge.net/p/detectmite/tickets/2/?limit=25#11ef/f7e1Hi JuanC, Please make sure to follow the instructions on the wiki page to install...Congting YeThu, 01 Sep 2016 07:15:23 -0000https://sourceforge.net/p/detectmite/tickets/2/?limit=25#11ef/f7e1https://sourceforge.net/p/detectmite/tickets/2/?limit=25#11efNow I'm getting ./cd-hit/cd-hit-est: /home/juan/Documents/matlab/sys/os/glnxa64/libstdc++.so.6:...JuanCWed, 31 Aug 2016 18:59:58 -0000https://sourceforge.net/p/detectmite/tickets/2/?limit=25#11efhttps://sourceforge.net/p/detectmite/tickets/2/error when runningJuanCWed, 31 Aug 2016 17:03:58 -0000https://sourceforge.net/p/detectmite/tickets/2/https://sourceforge.net/p/detectmite/wiki/UpdateHistory/UpdateHistoryCongting YeThu, 18 Aug 2016 09:55:36 -0000https://sourceforge.net/p/detectmite/wiki/UpdateHistory/https://sourceforge.net/p/detectmite/tickets/1/Problem with detectMITECongting YeThu, 18 Aug 2016 09:53:26 -0000https://sourceforge.net/p/detectmite/tickets/1/https://sourceforge.nethttps%3A//sourceforge.net/projects/detectmite/files/detectMITE.20160818.tar.gz/downloaddetectMITEThu, 18 Aug 2016 09:50:03 -0000https://sourceforge.net/projects/detectmite/files/detectMITE.20160818.tar.gz/downloadhttps://sourceforge.net/p/detectmite/tickets/1/?limit=25#aeafparpool is a function in the 'Parallel Computing Toolkit', which is an optional toolkit...Congting YeTue, 12 Jul 2016 15:57:35 -0000https://sourceforge.net/p/detectmite/tickets/1/?limit=25#aeafhttps://sourceforge.net/p/detectmite/tickets/1/Problem with detectMITEFelipe Marques de AlmeidaTue, 12 Jul 2016 13:32:33 -0000https://sourceforge.net/p/detectmite/tickets/1/https://sourceforge.net/p/detectmite/wiki/User%2520Manual/User ManualCongting YeSun, 31 Jan 2016 05:52:22 -0000https://sourceforge.net/p/detectmite/wiki/User%20Manual/https://sourceforge.net/p/detectmite/wiki/User%2520Manual/User ManualCongting YeSun, 31 Jan 2016 05:51:13 -0000https://sourceforge.net/p/detectmite/wiki/User%20Manual/https://sourceforge.nethttp%3A//sourceforge.net/projects/detectmite/files/UpdateHistory.txt/downloaddetectMITESun, 31 Jan 2016 05:48:02 -0000http://sourceforge.net/projects/detectmite/files/UpdateHistory.txt/downloadhttps://sourceforge.net/p/detectmite/wiki/UpdateHistory/UpdateHistoryCongting YeSun, 31 Jan 2016 05:31:26 -0000https://sourceforge.net/p/detectmite/wiki/UpdateHistory/https://sourceforge.net/p/detectmite/wiki/UpdateHistory/UpdateHistoryCongting YeSun, 31 Jan 2016 05:29:42 -0000https://sourceforge.net/p/detectmite/wiki/UpdateHistory/https://sourceforge.net/p/detectmite/wiki/UpdateHistory/UpdateHistoryCongting YeSun, 31 Jan 2016 05:29:03 -0000https://sourceforge.net/p/detectmite/wiki/UpdateHistory/https://sourceforge.net/p/detectmite/wiki/UpdateHistory/UpdateHistoryCongting YeSun, 31 Jan 2016 05:27:41 -0000https://sourceforge.net/p/detectmite/wiki/UpdateHistory/https://sourceforge.nethttp%3A//sourceforge.net/projects/detectmite/files/ReadMe.txt/downloaddetectMITESun, 31 Jan 2016 05:10:02 -0000http://sourceforge.net/projects/detectmite/files/ReadMe.txt/downloadhttps://sourceforge.nethttp%3A//sourceforge.net/projects/detectmite/files/detectMITE.20160128.tar.gz/downloaddetectMITESun, 31 Jan 2016 05:09:03 -0000http://sourceforge.net/projects/detectmite/files/detectMITE.20160128.tar.gz/downloadhttps://sourceforge.net/p/detectmite/wiki/User%2520Manual/User ManualCongting YeTue, 19 Jan 2016 06:27:07 -0000https://sourceforge.net/p/detectmite/wiki/User%20Manual/https://sourceforge.net/p/detectmite/wiki/User%2520Manual/User ManualCongting YeTue, 19 Jan 2016 02:25:37 -0000https://sourceforge.net/p/detectmite/wiki/User%20Manual/https://sourceforge.net/p/detectmite/wiki/User%2520Manual/User ManualCongting YeTue, 19 Jan 2016 02:24:21 -0000https://sourceforge.net/p/detectmite/wiki/User%20Manual/https://sourceforge.net/p/detectmite/wiki/User%2520Manual/User ManualCongting YeTue, 19 Jan 2016 02:23:12 -0000https://sourceforge.net/p/detectmite/wiki/User%20Manual/https://sourceforge.net/p/detectmite/wiki/User%2520Manual/User ManualCongting YeTue, 19 Jan 2016 02:21:15 -0000https://sourceforge.net/p/detectmite/wiki/User%20Manual/https://sourceforge.nethttp%3A//sourceforge.net/projects/detectmite/files/Supplementary_Data.7z/downloaddetectMITETue, 01 Dec 2015 09:41:02 -0000http://sourceforge.net/projects/detectmite/files/Supplementary_Data.7z/downloadhttps://sourceforge.net/p/detectmite/blog/2015/10/q1-why-does-detectmite-identify-much-larger-number-of-mite-families-than-the-ones-produced-by-other-tools-or-data-base/[Q1]: Why does detectMITE identify much larger number of MITE families than the ones produced by other tools or database?Congting YeMon, 26 Oct 2015 00:39:11 -0000https://sourceforge.net/p/detectmite/blog/2015/10/q1-why-does-detectmite-identify-much-larger-number-of-mite-families-than-the-ones-produced-by-other-tools-or-data-base/https://sourceforge.nethttp%3A//sourceforge.net/projects/detectmite/files/Supplementary_Data.7z/downloaddetectMITESun, 25 Oct 2015 23:59:02 -0000http://sourceforge.net/projects/detectmite/files/Supplementary_Data.7z/downloadhttps://sourceforge.net/p/detectmite/wiki/User%2520Manual/User ManualCongting YeWed, 14 Oct 2015 03:56:27 -0000https://sourceforge.net/p/detectmite/wiki/User%20Manual/https://sourceforge.net/p/detectmite/wiki/User%2520Manual/User ManualCongting YeTue, 13 Oct 2015 12:22:25 -0000https://sourceforge.net/p/detectmite/wiki/User%20Manual/https://sourceforge.net/p/detectmite/wiki/User%2520Manual/User ManualCongting YeTue, 13 Oct 2015 12:06:23 -0000https://sourceforge.net/p/detectmite/wiki/User%20Manual/https://sourceforge.net/p/detectmite/blog/2015/10/q2-what-does-the-description-line-mean-in-the-output-in-fasta-format-of-detectmite-/[Q2]: What does the description line mean in the output (in FASTA format) of detectMITE? Congting YeTue, 13 Oct 2015 08:57:15 -0000https://sourceforge.net/p/detectmite/blog/2015/10/q2-what-does-the-description-line-mean-in-the-output-in-fasta-format-of-detectmite-/https://sourceforge.net/p/detectmite/blog/2015/10/q2-what-does-the-description-line-mean-in-the-output-in-fasta-format-of-detectmite-/[Q2]: What does the description line mean in the output (in FASTA format) of detectMITE? Congting YeTue, 13 Oct 2015 08:56:19 -0000https://sourceforge.net/p/detectmite/blog/2015/10/q2-what-does-the-description-line-mean-in-the-output-in-fasta-format-of-detectmite-/https://sourceforge.net/p/detectmite/blog/2015/10/q2-what-does-the-description-line-mean-in-the-output-in-fasta-format-of-detectmite-/[Q2]: What does the description line mean in the output (in FASTA format) of detectMITE? Congting YeTue, 13 Oct 2015 08:54:54 -0000https://sourceforge.net/p/detectmite/blog/2015/10/q2-what-does-the-description-line-mean-in-the-output-in-fasta-format-of-detectmite-/https://sourceforge.net/p/detectmite/blog/2015/10/q1-why-does-detectmite-identify-much-larger-number-of-mite-families-than-the-ones-produced-by-other-tools-or-data-base/[Q1]: Why does detectMITE identify much larger number of MITE families than the ones produced by other tools or database?Congting YeTue, 13 Oct 2015 08:40:22 -0000https://sourceforge.net/p/detectmite/blog/2015/10/q1-why-does-detectmite-identify-much-larger-number-of-mite-families-than-the-ones-produced-by-other-tools-or-data-base/https://sourceforge.net/p/detectmite/blog/2015/10/q1-why-does-detectmite-identify-much-larger-number-of-mite-families-than-the-ones-produced-by-other-tools-or-data-base/[Q1]: Why does detectMITE identify much larger number of MITE families than the ones produced by other tools or data base?Congting YeTue, 13 Oct 2015 08:39:27 -0000https://sourceforge.net/p/detectmite/blog/2015/10/q1-why-does-detectmite-identify-much-larger-number-of-mite-families-than-the-ones-produced-by-other-tools-or-data-base/https://sourceforge.nethttp%3A//sourceforge.net/projects/detectmite/files/Supplementary_Data.7z/downloaddetectMITESun, 02 Aug 2015 18:11:02 -0000http://sourceforge.net/projects/detectmite/files/Supplementary_Data.7z/downloadhttps://sourceforge.net/p/detectmite/wiki/Home/HomeCongting YeWed, 03 Jun 2015 07:15:56 -0000https://sourceforge.net/p/detectmite/wiki/Home/https://sourceforge.nethttp%3A//sourceforge.net/projects/detectmite/files/ReadMe.txt/downloaddetectMITEWed, 03 Jun 2015 06:48:03 -0000http://sourceforge.net/projects/detectmite/files/ReadMe.txt/downloadhttps://sourceforge.nethttp%3A//sourceforge.net/projects/detectmite/files/detectMITE.20150603.7z/downloaddetectMITEWed, 03 Jun 2015 06:47:03 -0000http://sourceforge.net/projects/detectmite/files/detectMITE.20150603.7z/downloadhttps://sourceforge.nethttp%3A//sourceforge.net/projects/detectmite/files/ReadMe.txt/downloaddetectMITEWed, 03 Jun 2015 06:36:04 -0000http://sourceforge.net/projects/detectmite/files/ReadMe.txt/downloadhttps://sourceforge.nethttp%3A//sourceforge.net/projects/detectmite/files/detectMITE.20150603.7z/downloaddetectMITEWed, 03 Jun 2015 06:36:04 -0000http://sourceforge.net/projects/detectmite/files/detectMITE.20150603.7z/download