./Accelerators/ChimeraExtension.py:27:addCommand('ac', accel_cmd, None, help = True, changesDisplay = True)
./AddAttr/ChimeraExtension.py:36:addCommand("defattr", cmdAddAttr, help=True, changesDisplay=False)
./AddCharge/ChimeraExtension.py:58:addCommand("addcharge", cmdAddCharge, help=True, changesDisplay=False)
./AddH/ChimeraExtension.py:43:addCommand("addh", cmdAddH, help=True)
./Addions/ChimeraExtension.py:50:addCommand("adions", cmdAddions, help=True)
./Animate/ChimeraExtension.py:48:# addCommand(command, cmdFunc, revFunc=None, help=None, changesDisplay=True)
./Animate/ChimeraExtension.py:68:addCommand('scene',
./Animate/ChimeraExtension.py:75:#addCommand('transition',
./Animate/ChimeraExtension.py:80:#addCommand('animate',
./Animate/ChimeraExtension.py:100:addCommand('kfadd',
./Animate/ChimeraExtension.py:107:addCommand('kfclear',
./Animate/ChimeraExtension.py:114:addCommand('kfdel',
./Animate/ChimeraExtension.py:121:addCommand('kfmove',
./Animate/ChimeraExtension.py:128:addCommand('kfmovie',
./Animate/ChimeraExtension.py:135:addCommand('kfsave',
./Animate/ChimeraExtension.py:142:addCommand('kfshow',
./Animate/ChimeraExtension.py:149:addCommand('kfstatus',
./Animate/ChimeraExtension.py:157:addCommand('kftrans',
./Aniso/ChimeraExtension.py:42:addCommand("aniso", cmdAniso, revFunc=cmdUnaniso, help=True)
./apbs/ChimeraExtension.py:45:addCommand("apbs", emo.cmdLine, help=True)
./blastpdb/ChimeraExtension.py:27:addCommand("blast", emo.cmdLine, help=True, changesDisplay=False)
./blastpdb/ChimeraExtension.py:28:addCommand("psiblast", emo.cmdLine, help=True, changesDisplay=False)
./BuildStructure/ChimeraExtension.py:64:addCommand("invert", cmdInvert, help=True)
./ChangeChainIDs/ChimeraExtension.py:51:addCommand("changechains", cmdChangeChains, help=True, changesDisplay=False)
./chimera/writeSel.py:99:addCommand("writesel", midasCmd, help=True)
./Combine/ChimeraExtension.py:42:addCommand("combine", cmdCombine, help=True)
./CrystalContacts/ChimeraExtension.py:46:addCommand('crystalcontacts', crystal_contacts_command, help = True)
./DetectClash/ChimeraExtension.py:44:addCommand("findclash", cmdDetectClash, revFunc=cmdUndetectClash, help=True)
./EnsembleMatch/ChimeraExtension.py:56:addCommand('tile', tile_cmd, tile_cmd, help = True)
./EnsembleMatch/ChimeraExtension.py:61:addCommand('cluster', cluster_cmd, None, help = True)
./ESP/ChimeraExtension.py:25:addCommand("coulombic", wrapper, help=True)
./FindHBond/ChimeraExtension.py:46:addCommand("hbonds", cmdHBonds, revFunc=cmdUnHBonds, help=True)
./FindHBond/ChimeraExtension.py:47:addCommand("findhbond", cmdHBonds, revFunc=cmdUnHBonds, help=True)
./FitMap/ChimeraExtension.py:33:mt.addCommand('fitmap', fit_map, unfit_map, help = True)
./Flip/ChimeraExtension.py:8:addCommand('flip', flip_cmd)
./Fly/ChimeraExtension.py:8:addCommand('fly', fly_cmd, help = True)
./IcosahedralCage/ChimeraExtension.py:9:Midas.midas_text.addCommand('hkcage', hkcage, help = True)
./Ilabel/ChimeraExtension.py:57:addCommand("2dlabels", doLabel2DCmd, help=True)
./Intersurf/ChimeraExtension.py:19:midas_text.addCommand("intersurf", emo.commandLine)
./Leap/ChimeraExtension.py:8:addCommand('leap', leap_cmd, help = True)
./Lighting/ChimeraExtension.py:46:addCommand('lighting', lighting, help=True)
./ListInfo/ChimeraExtension.py:25:addCommand("listmodels", emo.command, help=True, changesDisplay=False)
./ListInfo/ChimeraExtension.py:26:addCommand("listchains", emo.command, help=True, changesDisplay=False)
./ListInfo/ChimeraExtension.py:27:addCommand("listresidues", emo.command, help=True, changesDisplay=False)
./ListInfo/ChimeraExtension.py:28:addCommand("listatoms", emo.command, help=True, changesDisplay=False)
./ListInfo/ChimeraExtension.py:29:addCommand("listselection", emo.command, help=True, changesDisplay=False)
./ListInfo/ChimeraExtension.py:30:addCommand("listphysicalchains", emo.command, help=True, changesDisplay=False)
./ListInfo/ChimeraExtension.py:31:addCommand("listen", emo.command, help=True, changesDisplay=False)
./ListInfo/ChimeraExtension.py:32:addCommand("sequence", emo.command, help=True, changesDisplay=False)
./Mask/ChimeraExtension.py:9:Midas.midas_text.addCommand('mask', mask_cmd, help = True)
./MatchMaker/ChimeraExtension.py:45:addCommand("mmaker", cmdMatchMaker, help=True)
./MatchMaker/ChimeraExtension.py:46:addCommand("matchmaker", cmdMatchMaker, help=True)
./MDA/ChimeraExtension.py:6:addCommand('mda', mdacmd, help = True) #someday!			
./MDA/MDA.py:1297:addCommand('mda', mdacommand, help = True) #someday!			
./Measure/ChimeraExtension.py:8:addCommand('measure', measure_cmd, help = True)
./MeshToMolecule/ChimeraExtension.py:8:addCommand('meshmol', mesh_to_molecule, help = True)
./Midas/midas_text.py:3113:def addCommand(command, cmdFunc, revFunc=None, help=None, changesDisplay=True):
./MMMD/ChimeraExtension.py:40:addCommand("minimize", emo.cmdMMMD, help=True)
./MMMD/ChimeraExtension.py:41:#addCommand("dynamics", emo.cmdMMMD, help=True)
./ModelClip/ChimeraExtension.py:33:addCommand('mclip', mclip_command, unclip_command, help = True)
./MoleculeCopy/ChimeraExtension.py:9:addCommand('mcopy', mcopy_cmd, help = True)
./MoleculeMap/ChimeraExtension.py:9:addCommand('molmap', molmap_cmd, help = True)
./Morph/ChimeraExtension.py:30:addCommand("morph", emo.cmdMorph, help=True)
./Morph.test/.svn/text-base/ChimeraExtension.py.svn-base:30:addCommand("morph", emo.cmdMorph, help=True)
./Morph.test/ChimeraExtension.py:30:addCommand("morph", emo.cmdMorph, help=True)
./Movie/ChimeraExtension.py:40:addCommand('coordset', coordset, help = True)
./MovieRecorder/ChimeraExtension.py:24:addCommand("movie", doMovieCmd, help=True, changesDisplay=False)
./MultiscaleColor/ChimeraExtension.py:16:Midas.midas_text.addCommand('msc', msc_command, msc_undo_command, help = True)
./nmod/ChimeraExtension.py:44:addCommand("NM", emo.cmdMMMD, help=True)
./nmod/ChimeraExtension.py:45:#addCommand("dynamics", emo.cmdMMMD, help=True)
./NucleicAcids/ChimeraExtension.py:35:addCommand('nucleotides', nucleotides, revFunc=unnucleotides, help=True)
./pdb2pqr/ChimeraExtension.py:45:addCommand("pdb2pqr", emo.cmdLine, help=True)
./Play/ChimeraExtension.py:14:addCommand('play', play, reverse_play, help = ('play.html', 'Play'))
./Ramachandran/ChimeraExtension.py:32:addCommand("ramachandran", emo.cmdLine, help=True)
./ResRenumber/ChimeraExtension.py:36:addCommand("resrenumber", cmdResRenumber, help=True, changesDisplay=False)
./RNALayout/ChimeraExtension.py:8:addCommand('rna', rna_cmd, help = True)
./Rotamers/ChimeraExtension.py:37:addCommand("swapaa", cmdRotamers, help=True)
./Segger/.svn/text-base/ChimeraExtension.py.svn-base:75:Midas.midas_text.addCommand('segment', segment, None, help = True)
./Segger/ChimeraExtension.py:75:Midas.midas_text.addCommand('segment', segment, None, help = True)
./Shape/ChimeraExtension.py:8:addCommand('shape', shape_cmd, help = True)
./Solvate/ChimeraExtension.py:68:addCommand("solvate", cmdSolvate, help=True)
./SplitMolecule/ChimeraExtension.py:6:Midas.midas_text.addCommand('split', split_molecules, help = True, changesDisplay=False)
./StructureDiagram/ChimeraExtension.py:37:addCommand("struct2d", emo.cmdLine, help=True, changesDisplay=False)
./Struts/ChimeraExtension.py:11:addCommand('struts', struts, unstruts, help = True)
./Surface/ChimeraExtension.py:37:addCommand('sop', sop_cmd, unsop_cmd, help = True)
./SurfaceColor/ChimeraExtension.py:77:addCommand('scolor', scolor_cmd, scolor_cmd, help = True)
./SurfaceColor/ChimeraExtension.py:78:addCommand('scolour', scolor_cmd, scolor_cmd, help = True)
./SurfaceColor/red_area.py:43:addCommand('redarea', red_area_command)
./SurfaceZone/ChimeraExtension.py:33:Midas.midas_text.addCommand('bondzone', bzone, no_bzone, help = True, changesDisplay=False)
./SymmetryCopies/ChimeraExtension.py:10:Midas.midas_text.addCommand('sym', symmetry_copies, undo_symmetry_copies,
./TemplateExtension/ChimeraExtension.py:52:addCommand("Template command name", emo.cmdLine, help=True)
./Topography/ChimeraExtension.py:8:addCommand('topography', topo, help = True)
./ViewDock/ChimeraExtension.py:61:addCommand("viewdock", emo.cmdViewdock, help=True)
./vina/ChimeraExtension.py:37:addCommand("vina", vinaEmo.cmdLine, help=True)
./VolumeFilter/ChimeraExtension.py:26:addCommand('vop', vop_cmd, help = True)
./VolumeMask/ChimeraExtension.py:8:addCommand('vmask', mask)
./VolumeSeries/alignseries.py:61:mt.addCommand('alignseries', alignseries_command, None)
./VolumeSeries/ChimeraExtension.py:42:addCommand('vseries', vseries_cmd, help = True)
./VolumeViewer/ChimeraExtension.py:66:addCommand('volume', volume_cmd, help = True)
./Zone/ChimeraExtension.py:6:Midas.midas_text.addCommand('zonesel', zone_cmd, help = True)