[chimera-dev] how to remove chimera file load history?

[Dennis N Bromley]

thank you Elaine, that worked beautifully.
-denny-






On Mon, May 12, 2014 at 9:49 AM, Elaine Meng <meng at cgl.ucsf.edu> wrote:

> Hi Dennis,
> You can (carefully) text-edit your preferences file to remove the file
> browser history. You may want to save a copy first, because it's easy to
> mess up. The file browser history is in the 'miller browser' section.  You
> could remove the whole section, but the least ablative approach would be to
> try just removing the offending directory.  Of course, if you don't know
> where your preferences file is, that would be a problem (normally you can
> start Chimera and look in the Preferences category of the Preferences to
> see where it is).  Here is some information about the default location:
> <
> http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/preferences.html#preffile
> >
>
> Alternatively you could also specify a different (or nonexistent, in which
> case you will get factory defaults) preferences file upon startup with the
> command-line "--preferences" option.  See the link above for more
> information.  I tried "chimera --preferences nonexistentfile" and that
> started Chimera with factory defaults.
>
> In my preferences file, the whole section is
>
> 'miller browser': {'dirHistory': [u'/Users/meng/Desktop/chidata',
>                                    u'/Users/meng/Desktop',
>                                    '/Users/meng'],
>                     'fileHistory': {'':
> [u'/Users/meng/Desktop/tnnt2_human.py',
>                                          u'/Users/meng/Desktop/stuff.py'],
>                                     'MAV file save':
> [u'/Users/meng/Desktop/troponinT.afa'],
>                                     'MAV phylogeny':
> [u'/Users/meng/Desktop/chidata/PF04055.nhx'],
>                                     'PDB traj multi-model':
> [u'/Users/meng/Desktop/pathway.pdb'],
>                                     'SaveImage':
> [u'/Users/meng/Desktop/viewdock.png',
>
> u'/Users/meng/Desktop/viewdock-white2-amended.png',
>
> u'/Users/meng/Desktop/target-coulombic.png',
>
> u'/Users/meng/Desktop/template-coulombic.png',
>
> u'/Users/meng/Desktop/chidata/viewdock.png',
>
> u'/Users/meng/Desktop/viper-2g33-ribbons.png',
>
> u'/Users/meng/Desktop/viper-2g33-surf.png',
>
> u'/Users/meng/Desktop/viper-2g33-rib.png',
>
> u'/Users/meng/Desktop/book3-coulombic-kiss90pct.png',
>
> u'/Users/meng/Desktop/book3-coulombic-kiss.png'],
>                                     'SimpleSession':
> [u'/Users/meng/Desktop/viewdock-amended.py',
>
> u'/Users/meng/Desktop/viewdock-white2-amended.py',
>
> u'/Users/meng/Desktop/vdtest.py',
>
> u'/Users/meng/Desktop/posy-objects.py',
>
> u'/Users/meng/Desktop/testcand1.py',
>
> u'/Users/meng/Desktop/testcand5.py',
>
> u'/Users/meng/Desktop/testdaily5.py',
>
> u'/Users/meng/Desktop/testdaily1.py',
>
> u'/Users/meng/Desktop/testdaily.py',
>
> u'/Users/meng/Desktop/mca-model-coulombic.py'],
>                                     'ViewDock':
> [u'/Users/meng/Desktop/chidata/ras.mol2'],
>                                     'main chimera import dialog':
> [u'/Users/meng/Desktop/chidata/1plx.pdb',
>
>  u'/Users/meng/Desktop/chidata/XYZ-axes.bild',
>
>  u'/Users/meng/Desktop/4bqy_Phd3_edit.pdb',
>
>  u'/Users/meng/Desktop/4BQY.pdb',
>
>  u'/Users/meng/Desktop/4bqy_Phd1_edits_mar21.pdb']},
>
> If th offending directory was chidata, for example, I would try removing
> just that one, from:
>
> 'miller browser': {'dirHistory': [u'/Users/meng/Desktop/chidata',
>                                    u'/Users/meng/Desktop',
> to:
>
> 'miller browser': {'dirHistory': [u'/Users/meng/Desktop',
>
> If the preferences file gets messed up so that it is unusable, Chimera may
> just ignore it, which would also have the beneficial effect of forgetting
> your directory, but at the cost of forgetting your other preferences and
> history items.  I hope this helps,
> Elaine
> ----------
> Elaine C. Meng, Ph.D.
> UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
> Department of Pharmaceutical Chemistry
> University of California, San Francisco
>
> On May 12, 2014, at 9:02 AM, Dennis N Bromley <dbromley at uw.edu> wrote:
>
> > Hi all,
> >
> > Whenever I try and load a file into chimera, it tries to open the
> windows file load dialog in the last directory I loaded a file from (I
> guess that is what is happening, at any rate).  But that directory now has
> around 10K pdb files in it and chimera hangs trying to enumerate them all
> (maybe due to windows/samba/etc).  As a result, I can no longer even use
> chimera because it hangs every time I try and load a file.
> >
> > Is there a way to clear this so that I can load files again?
> >
> > thanks!
> > -denny-
>
>
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