[maker-devel] Maker changes 2.30-2.31

[Carson Holt]

Attached.  Also make sure you are using the tar ball from the lab website
and not the prerelease from the subversion repository.

Thanks,
Carson



On 3/18/14, 5:43 AM, "Marc Höppner" <marc.hoeppner at bils.se> wrote:

>Hi,
>
>I have observed a few oddities with our installation of maker 2.31 and
>was therefore wondering if there is a change log somewhere to get some
>information on what, if anything, was changed between 2.30 and 2.31?
>
>There is of course a good chance that the issues I am seeing (pipeline
>locking up) are related to our setup and not necessarily Maker - but I’d
>like to make sure, if possible. Both versions use the exact same external
>binaries etc, and were run on the same data. 2.30 is running along
>happily, 2.31 however has randomly locked up. I should perhaps also say
>that I am running on SL 6.2 and am using mpich2 for the MPI run.
>
>I haven’t done any more systematic testing so far, but will probably do
>so if there is no ‘obvious’ reason why Maker 2.31 should behave
>differently..
>
>Cheers,
>
>Marc
>
>
>
>
>Marc P. Hoeppner, PhD
>Department for Medical Biochemistry and Microbiology
>Uppsala University, Sweden
>marc.hoeppner at bils.se
>
>
>_______________________________________________
>maker-devel mailing list
>maker-devel at box290.bluehost.com
>http://box290.bluehost.com/mailman/listinfo/maker-devel_yandell-lab.org

-------------- next part --------------
r1060 | cholt | 2013-11-04 11:18:12 -0700 (Mon, 04 Nov 2013) | MAKER stable release version 2.30
r1061 | cholt | 2013-11-10 22:19:51 -0700 (Sun, 10 Nov 2013) | altered build install slightly
r1062 | cholt | 2013-11-25 09:33:16 -0700 (Mon, 25 Nov 2013) | updated fgenesh for hint based annotation error
r1063 | cholt | 2013-12-05 14:10:42 -0700 (Thu, 05 Dec 2013) | fix repeat too short output error
r1064 | cholt | 2013-12-05 14:18:04 -0700 (Thu, 05 Dec 2013) | updated installation scripts
r1065 | cholt | 2013-12-13 08:42:08 -0700 (Fri, 13 Dec 2013) | fix fully masked failure for BLAST 2.2.25
r1066 | cholt | 2014-01-09 10:45:08 -0700 (Thu, 09 Jan 2014) | update MWAS and maker2jbrowse
r1067 | cholt | 2014-01-09 11:34:18 -0700 (Thu, 09 Jan 2014) | fix invalid character in Ecoli example fasta
r1068 | cholt | 2014-01-24 10:42:15 -0700 (Fri, 24 Jan 2014) | added iprscan to maker.css for MWAS
r1070 | cholt | 2014-01-26 20:27:52 -0700 (Sun, 26 Jan 2014) | attempt to fix ipr_update issues with Name ne to ID and fix lock with GFF3DB as well as docs for JBrowse and MAKER install
r1071 | cholt | 2014-01-26 20:41:55 -0700 (Sun, 26 Jan 2014) | alter install to hide MWAS fix skip of small contigs and map forward of genes with est_forward
r1072 | cholt | 2014-01-28 11:20:41 -0700 (Tue, 28 Jan 2014) | added message to get user to use the correct maker executable and updated INSTALL docs
r1073 | cholt | 2014-01-28 11:36:19 -0700 (Tue, 28 Jan 2014) | further update to maker from wrong directory message when name has whitespace
r1074 | cholt | 2014-02-03 14:48:05 -0700 (Mon, 03 Feb 2014) | fixed segfault on exit for OpenMPI
r1075 | cholt | 2014-02-03 15:32:38 -0700 (Mon, 03 Feb 2014) | added support for optional test compiler flags to be used with MVAPICH2
r1076 | cholt | 2014-02-03 15:38:52 -0700 (Mon, 03 Feb 2014) | fixed build commit missing m option
r1077 | cholt | 2014-02-04 14:29:43 -0700 (Tue, 04 Feb 2014) | made MPI communication always serialize
r1078 | cholt | 2014-02-05 11:23:10 -0700 (Wed, 05 Feb 2014) | updated MPI calling to use probe for size rather than another message for faster performance
r1079 | cholt | 2014-02-06 08:29:45 -0700 (Thu, 06 Feb 2014) | fixed labeling bug, fixed hanging MPI calls, fixed trnascan introns, and length
r1080 | cholt | 2014-02-11 10:08:33 -0700 (Tue, 11 Feb 2014) | switch FindBin::Bin for FindBin::RealBin throughout
r1081 | cholt | 2014-02-11 10:49:24 -0700 (Tue, 11 Feb 2014) | MAKER stable release version 2.31