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src/b/i/biskit-2.4/scripts/Dock/concat_complexLists.py   biskit(Download)
    result = ComplexList()
 
    rec_dic = T.load( T.absfile( options['rdic'] ) )
    lig_dic = T.load( T.absfile( options['ldic'] ) )
 
    for f in fs:
 
        T.flushPrint('Loading %s ...' % f )
 
        cl = T.load( f )

src/b/i/biskit-2.4/scripts/Dock/contacter.py   biskit(Download)
## load docking solutions
t.flushPrint( "\nLoading complex list %s ... " % t.absfile( options['i'] ) )
complex_lst = t.load( options['i'] )
t.flushPrint( "done\n" )
 
refComplex = None
if options.has_key('ref'):
    refComplex = t.load( t.absfile( options['ref'] ) )
 
## remove excluded hosts
        complex_lst = ComplexList()
        for f in subFile_names:
            sub = t.load( f )
            complex_lst += sub
            os.unlink( f )

src/b/i/biskit-2.4/scripts/Biskit/dope.py   biskit(Download)
    print 'Updating ', f
 
    d = T.load( T.absfile( f ) )
 
    for m in d.values():
else:
    try:
        source = T.load( sourceIn )
        if not source.profile('cons_ent', None):
            raise Exception()

src/b/i/biskit-2.4/Biskit/Dock/Analyzer.py   biskit(Download)
 
        if verbose: t.flushPrint("\nLoading...")
        self.t_lig = t.load( options['lig'] )
        self.t_rec = t.load( options['rec'] )
        self.com= t.load( options['ref'] )
 
        ## load a complex list
        cl = t.load( t.testRoot() + '/dock/hex/complexes.cl')
 
        self.a= Analyzer( rec = self.f_out,

src/b/i/biskit-2.4/scripts/Biskit/trajpool2ensemble.py   biskit(Download)
 
T.flushPrint("Loading...")
t = T.load( f_in )
 
T.flushPrint("Converting %i frames..." % len(t) )

src/b/i/biskit-2.4/Biskit/Dock/Docker.py   biskit(Download)
        import os.path
 
        ligDic = t.load( t.testRoot() + '/multidock/lig/1A19_models.dic' )
 
        ## in the test root the directories "multidock/rec" and
            os.symlink( t.testRoot() + '/dock/com', com_dir )
 
        recDic = t.load( t.testRoot() + '/dock/rec/1A2P_model.dic' )
 
        self.d = Docker( recDic, ligDic, out=self.out_folder,

src/b/i/biskit-2.4/Biskit/Dock/ContactMaster.py   biskit(Download)
        self.hosts = cpus_all[:4]
 
        lst = t.load( t.testRoot() + "/dock/hex/complexes.cl")
        lst = lst[:9]
 
        refcom = t.load( t.testRoot() + "/com/ref.complex")

src/b/i/biskit-2.4/scripts/Biskit/traj2ensemble.py   biskit(Download)
def loadTraj( f, trajIndex, start=0, end=None, step=1 ):
    """Load traj from file, add frame names, extract portion if requested"""
 
    t = T.load( T.absfile( f ) )
    addFrameNames( t, trajIndex )

src/b/i/biskit-2.4/scripts/Biskit/relocalize.py   biskit(Download)
        print "Re-localizing ", f
        f = tools.absfile( f )
        o = tools.load( f )
        result = 0
 

src/b/i/biskit-2.4/scripts/Dock/delphiBinding.py   biskit(Download)
def inputComplex( options ):
    if 'c' in options:
        return T.load( T.absfile( options['c'] ) )
 
    m = PDBModel( T.absfile( options['i'] ) )

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