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src/b/i/biskit-2.4/scripts/Biskit/dope.py   biskit(Download)
            T.stripFilename( inFile ) + '.model' 
 
    T.dump( model, outFile )
 
    print '-> ' + os.path.basename( outFile )
        m.update( updateMissing=1 )
 
    T.dump( d, T.absfile( f ) )
 
##########

src/b/i/biskit-2.4/Biskit/AmberEntropyMaster.py   biskit(Download)
        else:
            self.log.add('Saving ' + fname )
            T.dump( o, fname )
 
        return fname
                self.log.write('saving ' + f + '...')
                m = traj.takeMember( n )
                T.dump( m, f )
                self.log.add('done')
            r += [ f ]
        f_prot = T.stripSuffix( T.absfile(self.fout) ) + '_protocols.dat'
        self.log.write( 'Saving parameters to %s...' % f_prot )
        T.dump( self.protocols, f_prot )
 
 
        tree = self.getResult()
        self.log.add("Saving result to %s..." % self.fout)
        T.dump( tree, self.fout )
        self.log.add( "Done" )
 

src/b/i/biskit-2.4/scripts/Biskit/averageASA.py   biskit(Download)
 
## save dictionary with all 20 amino acids
T.dump( MS, base_folder + 'MS%s.dic'%label)
T.dump( AS, base_folder + 'AS%s.dic'%label )
T.dump( MS_sd, base_folder + 'MS_sd%s.dic'%label )
T.dump( AS_sd, base_folder + 'AS_sd%s.dic'%label )

src/b/i/biskit-2.4/scripts/Dock/contacter.py   biskit(Download)
                ## subList contains no info to be updated   
                else:
                    t.dump( subLst, subFile )
 
        print '\nCollecting final results...'
            os.unlink( f )
 
        t.dump( complex_lst, options['o'] )
 
    else:

src/b/i/biskit-2.4/Biskit/Dock/Analyzer.py   biskit(Download)
        self.t_rec = Trajectory( [t.testRoot()+'/rec/1A2P.pdb'],
                                 verbose=self.local)
        t.dump( self.t_rec, self.f_out )
 
        ## load a complex list

src/b/i/biskit-2.4/scripts/Dock/concat_complexLists.py   biskit(Download)
 
    T.flushPrint('Dumping result to %s' % T.absfile( options['o'] ) )
    T.dump( result, T.absfile( options['o'] ) )
 

src/b/i/biskit-2.4/scripts/Biskit/trajpool2ensemble.py   biskit(Download)
 
T.flushPrint("Saving...")
T.dump( t, f_out )
 
T.flushPrint("Done.\n")

src/b/i/biskit-2.4/scripts/Biskit/redump.py   biskit(Download)
 
        T.flushPrint('Dumping %s\n' % f )
        T.dump( o, T.absfile( f ) )
 
    except:

src/b/i/biskit-2.4/scripts/Dock/selectModels.py   biskit(Download)
    ## save model dictionary
    fdic = options['dic'] or m.getPdbCode() + '_models.dic'
    T.dump( model_dic, T.absfile( fdic ) )
 
## REDUNDANT CODE AS MULTIDOCK NOW WRITES THE HEX PDB FILES
##    r=rmsdLimitedClustering( tc, options )
    if options.has_key('co'):
        T.dump( tc, options['co'] )
 
    report( tc )

src/b/i/biskit-2.4/scripts/Dock/delphiBinding.py   biskit(Download)
 
    print "Saving result complex to ", f_ocom
    T.dump( dg.delphicom, f_ocom )
 
    print "Final Result"

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