Howdy, One of my users is getting a crash while trying to delete waters. He has tried an older 0.6 version on OS X Intel 10.4 and the latest 0.6.2-pre-1 on 10.6 with the same results.
Here are the last few lines from the terminal before the crash: (set-delete-residue-mode) Click on an atom in the residue that you wish to delete (set-delete-residue-water-mode) (4) O /1/chainid="W"/4/HOH, occ: 1 with B-factor: 30 element: O at (0.815,22.151,85.383) : 0.0808511 debug:: delete_atom: we have a matching residue 4 :: INFO:: backup file coot-backup/_Users_jmp007_parp1_Zn1_DNA_sept09_xtal1_65_Final_Refine_xtal1_65_final_refine_7_newWaters_coot-0.pdb_Wed_May_26_09:01:37_2010_modification_0.pdb.gz/programs/i386-mac/coot/0.6/bin/coot: line 5: 1905 Bus error /programs/i386-mac/coot/0.6/bin/coot-real "$@" He also reports "the waters were generated in COOT using the "find waters" function under "Other Modeling Tools." I do not have this problem when deleting waters that were generated in Phenix, so it seems to be something peculiar about these waters. I have tried saving the coordinate file, then reading back in the file, but the program still crashes. I cannot see anything obviously wrong with the PDB file." And he provided an excerpt: CRYST1 62.812 107.334 86.998 90.00 100.61 90.00 P 1 21 1 HETATM 1 O HOH W 1 -3.091 76.188 38.073 1.00 30.00 O HETATM 2 O HOH W 2 10.534 47.098 34.169 1.00 30.00 O HETATM 3 O HOH W 3 -30.117 62.713 61.734 1.00 30.00 O HETATM 4 O HOH W 4 0.815 22.151 85.383 1.00 30.00 O Any ideas? We can provide more info if needed. Thanks. -ben -- | Ben Eisenbraun | Software Sysadmin | | Structural Biology Grid | http://sbgrid.org | | Harvard Medical School | http://hms.harvard.edu |
