Hi Hinsby, thanks for writing... On Fri, 2009-10-23 at 15:14 -0500, Hinsby Cadillo wrote: > Hello all, > > I had the same trouble than Doug when using my OS 10.6 , so I > downloaded the latest build as posted by Aaron > (http://gel.ahabs.wisc.edu/mauve/snapshots/2009/2009-10-21/MacOS/Mauve-snapshot_2009-10-21.dmg) > > I run some three genomes and instead of error 134 now I get error 254. > here is the output of the console: > > OS name is: Mac OS X arch: x86_64 > Executing: > /Volumes/Mauve > snapshot_2009-10-21/Mauve.app/Contents/MacOS/mauveAligner > --output=Ms_aligmentsTest --island-size=50 > --island-output=Ms_aligmentsTest.islands --backbone-size=50 > --max-backbone-gap=50 --backbone-output=Ms_aligmentsTest.backbone > --id-matrix=Ms_aligmentsTest.id_matrix > --output-alignment=Ms_aligmentsTest.alignment > --output-guide-tree=Ms_aligmentsTest.guide_tree > /Users/hinsby1/Documents/DATA_1/UIUC/UIUC_gnome_data/CurrentSislandicus_NCBI/M1425NC_012588.gbk > > /Users/hinsby1/Documents/DATA_1/UIUC/UIUC_gnome_data/CurrentSislandicus_NCBI/M1425NC_012588.gbk.sslist > > /Users/hinsby1/Documents/DATA_1/UIUC/UIUC_gnome_data/CurrentSislandicus_NCBI/M1627NC_012632.gbk > > /Users/hinsby1/Documents/DATA_1/UIUC/UIUC_gnome_data/CurrentSislandicus_NCBI/M1627NC_012632.gbk.sslist > > /Users/hinsby1/Documents/DATA_1/UIUC/UIUC_gnome_data/CurrentSislandicus_NCBI/M164_NC_012726.gbk > > /Users/hinsby1/Documents/DATA_1/UIUC/UIUC_gnome_data/CurrentSislandicus_NCBI/M164_NC_012726.gbk.sslist > > Sequence loaded successfully.Error opening Ms_aligmentsTest > > /Users/hinsby1/Documents/DATA_1/UIUC/UIUC_gnome_data/CurrentSislandicus_NCBI/M1425NC_012588.gbk > 2608832 base pairs. > Sequence loaded successfully. > /Users/hinsby1/Documents/DATA_1/UIUC/UIUC_gnome_data/CurrentSislandicus_NCBI/M1627NC_012632.gbk > 2692402 base pairs. > Sequence loaded successfully. > /Users/hinsby1/Documents/DATA_1/UIUC/UIUC_gnome_data/CurrentSislandicus_NCBI/M164_NC_012726.gbk > 2586647 base pairs. > Using weight 15 mers for initial seeds > Creating sorted mer list > Create time was: 1 seconds. > Creating sorted mer list > Create time was: 1 seconds. > Creating sorted mer list > Create time was: 1 seconds. > Exited with error code: 254 >
<snip> Although mauveAligner eventually exited with error 254, another error message earlier in the log caught my eye: "Error opening Ms_aligmentsTest." This message suggests that the location where you have chosen to save the alignment output may be write-protected, owned by another user on your computer, or otherwise unwritable such as a folder on a CD or mounted disk image. It might also be a sign that the chosen output location is on a full disk. Can you check whether any of those issues might be occurring? If not, please let us know so we can dig deeper to resolve the matter. On another topic, I notice you're using the original mauveAligner algorithm. If possible I'd recommend using progressiveMauve for your alignments since it's less prone to generating erroneous alignments. You'll find it in the File menu under "Align with progressiveMauve" Regards, -Aaron ------------------------------------------------------------------------------ Come build with us! The BlackBerry(R) Developer Conference in SF, CA is the only developer event you need to attend this year. Jumpstart your developing skills, take BlackBerry mobile applications to market and stay ahead of the curve. Join us from November 9 - 12, 2009. Register now! http://p.sf.net/sfu/devconference _______________________________________________ Mauve-users mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/mauve-users
