Hi all, Following on from this thread, I believe the underlying problem described may have been the same issue (an incompatibility with the new boost libraries used by Mauve) that was causing crashes on other platforms, and that was discussed in a separate thread. I have now been able to post snapshots for Windows & Mac that address the problem, and it would be interesting to know whether the issues persist with these updates. For mac: http://darlinglab.org/mauve/snapshots/2015/2015-02-25/MacOS/Mauve-snapshot_2015-02-25.dmg For windows: http://darlinglab.org/mauve/snapshots/2015/2015-02-26/windows/mauve_installer_20150226.exe
(linux already posted) The fixes will of course become part of an upcoming release. Best, -Aaron On Sat, 2015-02-14 at 06:51 +1100, Marco A. Riojas wrote: > I too have received numerous "-1073741819" errors in Mauve 2.4. I > just hadn't gotten around to reporting it yet. > > > However, running the same analyses in Mauve 2.3.1 didn't give me the > same error. So even though it doesn't fix the problem in 2.4, that > might be one way to bypass the issue. > > > > > Cheers, > > > Marco > > > > Marco A. Riojas > Lead Biologist, Collections/R&D > Biodefense & Emerging Infections > American Type Culture Collection (ATCC) > > > > > > > On Fri, Feb 13, 2015 at 2:32 PM, NML_ARNI <nml_a...@phac-aspc.gc.ca> > wrote: > Thanks for the reply Aaron...I actually have admin privileges > and checked my permissions and have read/write....nonetheless > I tried an alignment and pointed the saved output to the > desktop (test).....it looked like it went farther but only an > empty 'test' file ended up on the desktop: > Running alignment. > Executing > win64\progressiveMauve > --output=C:\Users\dboyd\Desktop\test > --output-guide-tree=C:\Users\dboyd\Desktop\test.guide_tree > --backbone-output=C:\Users\dboyd\Desktop\test.backbone > L:\Nosocomial\DAB\PlasmidSequencing\IncACplasmids > \pAM04528.gbk > L:\Nosocomial\DAB\PlasmidSequencing\IncACplasmids > \pAR17.gbk > Storing raw sequence at C:\Users\dboyd\AppData\Local\Temp > \rawEAEC.tmp > Sequence loaded successfully. > L:\Nosocomial\DAB\PlasmidSequencing\IncACplasmids\pAM04528.gbk > 158213 base pairs. > Storing raw sequence at C:\Users\dboyd\AppData\Local\Temp > \rawEB3B.tmp > Sequence loaded successfully. > L:\Nosocomial\DAB\PlasmidSequencing\IncACplasmids\pAR17.gbk > 143963 base pairs. > Using weight 13 mers for initial seeds > Creating sorted mer list > Create time was: 0 seconds. > Creating sorted mer list > Create time was: 1 seconds. > 3%..6%..9%..13%.. > 16%..19%..23%.. > 26%..29%..33%.. > 36%..39%..43%.. > 46%..49%..52%.. > 56%..59%..62%.. > 66%..69%..72%.. > 76%..79%..82%.. > 86%..89%..92%.. > 95%..97%..99%..done. > using default bp penalty: 120435 > using default bp estimate min score: 361306 > Starting with 1332 multi-matches > Computing genome content distance matrix... > > > Genome conservation distance matrix: > 0 0.394941 > 0.394941 0 > > Writing guide tree to C:\Users\dboyd\Desktop\test.guide_tree > Exited with error code: -1073741819 > > Dave > > > ******************************************************************************************************************* > Hi David, intermingled with the normal output are some error > messages > indicating Mauve isn't able to write to the output location > you've > specified: > > "Unable to open output file "test6" for writing." > > I would suggest that you try the same alignment again, but > take care to > use the output file chooser (the button with ... in the GUI) > to select a > location to which you have write access. The desktop or your > documents > folder are some candidates. > > Best, > -Aaron > > > On Fri, 2015-02-13 at 08:54 +1100, David Boyd wrote: > > I first downloaded Mauve 2.4 in mid-Dec. and it worked fine > (Windows 7 > > Pro, 64 bit). Didn't try to use it again until a few weeks > ago and > > just will not work. Tried some a couple of gbk and a couple > of fas > > files. I can look at old alignments on 2.4.0 that were done > in 2.3.1. > > > > Running alignment. > > Executing > > win64\progressiveMauve > > --output=test6 > > --output-guide-tree=test6.guide_tree > > --backbone-output=test6.backbone > > L:\Nosocomial\DAB\PlasmidSequencing\IncACplasmids > \pAM04528.gbk > > L:\Nosocomial\DAB\PlasmidSequencing\IncACplasmids > \pAR17.gbk > > Storing raw sequence at C:\Users\dboyd\AppData\Local\Temp > \rawD672.tmp > > Sequence loaded successfully. > > L:\Nosocomial\DAB\PlasmidSequencing\IncACplasmids > \pAM04528.gbk 158213 > > base pairs. > > Storing raw sequence at C:\Users\dboyd\AppData\Local\Temp > \rawD683.tmp > > Sequence loaded successfully.Unable to open output file > "test6" for > > writing. > > > > L:\Nosocomial\DAB\PlasmidSequencing\IncACplasmids\pAR17.gbk > 143963 > > base pairs.Check that you have permission to write files in > this > > location and that the disk has free space. > > > > Using weight 13 mers for initial seeds > > > > This application has requested the Runtime to terminate it > in an > > unusual way.Creating sorted mer list > > > > Please contact the application's support team for more > > information.Create time was: 0 seconds. > > > > Creating sorted mer list > > Create time was: 0 seconds. > > Exited with error code: 3 > > > > During the time I wasn't using it I think I updated Java but > that was > > about it. The same files worked on another computer running > XP and > > Mauve 2.3.1. > > > > At a lose and NOT computer savvy. > > > > Dave Boyd > > > > > > > > ------------------------------------------------------------------------------ > Dive into the World of Parallel Programming. The Go Parallel > Website, > sponsored by Intel and developed in partnership with Slashdot > Media, is your > hub for all things parallel software development, from weekly > thought > leadership blogs to news, videos, case studies, tutorials and > more. Take a > look and join the conversation now. > http://goparallel.sourceforge.net/ > _______________________________________________ > Mauve-users mailing list > Mauve-users@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/mauve-users > > > -- Aaron E. Darling, Ph.D. Associate Professor, ithree institute University of Technology Sydney Australia http://darlinglab.org twitter: @koadman UTS CRICOS Provider Code: 00099F DISCLAIMER: This email message and any accompanying attachments may contain confidential information. If you are not the intended recipient, do not read, use, disseminate, distribute or copy this message or attachments. If you have received this message in error, please notify the sender immediately and delete this message. Any views expressed in this message are those of the individual sender, except where the sender expressly, and with authority, states them to be the views of the University of Technology Sydney. Before opening any attachments, please check them for viruses and defects. Think. Green. Do. Please consider the environment before printing this email. ------------------------------------------------------------------------------ Dive into the World of Parallel Programming The Go Parallel Website, sponsored by Intel and developed in partnership with Slashdot Media, is your hub for all things parallel software development, from weekly thought leadership blogs to news, videos, case studies, tutorials and more. Take a look and join the conversation now. http://goparallel.sourceforge.net/ _______________________________________________ Mauve-users mailing list Mauve-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/mauve-users
