view test/test.py @ 501:527b713affaa
blocks3d/blocks3d.py: program was reimplemented
Blocks3d version 2.0
* reimplemented old program
* added text output
| author |
boris (netbook) <bnagaev@gmail.com> |
| date |
Tue, 22 Feb 2011 19:22:45 +0300 |
| parents |
73f9779491ef |
| children |
|
line source
3 from allpy.alignment import Alignment
4 from allpy.block import Block
6 p = Alignment(open('test.fasta'))
7 print "alignment length: %i" % len(p)
8 print "sequence: %s" % str(p.sequences[0])
10 p.sequences[0].pdb_chain_add(open('1jcc.pdb'), '1jcc', 'B')
11 p.sequences[1].pdb_chain_add(open('1kfm.pdb'), '1kfm', 'A')
14 GCs = b.geometrical_cores(ac_new_atoms=0.00, ac_count=-1)
15 b.save_fasta(sys.stdout)
16 for i, GC in enumerate(GCs):
17 GC.save_xstring(sys.stdout, i)
19 #~ alignment.process(processors.Muscle())
20 #~ p.save_fasta(sys.stdout)
