Документ взят из кэша поисковой машины. Адрес оригинального документа : http://kodomo.fbb.msu.ru/hg/allpy/annotate/835efa2a8c71/Makefile
Дата изменения: Unknown
Дата индексирования: Tue Feb 26 16:40:32 2013
Кодировка:
allpy: Makefile annotate

allpy

annotate Makefile @ 817:835efa2a8c71

optimization of rasmol_homology: keep structure loaded of two sequences only One of steps of this program is superimposition of all sequences with main sequence and saving of all structures to pdb file. Loaded structure of all sequences is not needed to do this. At every moment only structure of main sequence and of superimposing sequence. This optimization results in essential memory saving. Output files should be the same to previous revision. To implement this optimization methods supeimpose and save_pdb of alignment were replaced with methods with same names of sequence. So some code is same as code of methods of alignment. Note: behaves as before, with superimpose and save_pdb methods of alignment. Model was returned by these methods but never used while generating spt script. This can result in collisions of rasmol selections when number of sequences is greater than max number of chains of one model.
author boris (kodomo) <bnagaev@gmail.com>
date Fri, 15 Jul 2011 02:23:27 +0400
parents b291f9c34b49
children 101a23cd98ac
rev   line source
dendik@534 1 components_cif_gz_url = \
dendik@534 2 ftp://ftp.ebi.ac.uk/pub/databases/rcsb/pdb/data/monomers/components.cif.gz
dendik@534 3 codes_py = allpy/data/codes.py
dendik@534 4 components_cif = allpy/data/components.cif
dendik@534 5
dendik@542 6 all: doc codes tests
dendik@540 7
dendik@542 8 tests:
dendik@682 9 PYTHONPATH=$(PWD) nosetests --with-coverage
dendik@540 10
dendik@540 11 doc:
dendik@540 12 sphinx-autopackage --suffix=rst --dest-dir=docs/source/allpy/ allpy
dendik@540 13 $(MAKE) -C docs html
dendik@540 14
dendik@540 15 force-doc:
dendik@540 16 rm docs/source/allpy/*
dendik@540 17 rm -rf docs/build
dendik@540 18 $(MAKE) doc
dendik@540 19
dendik@540 20 codes: $(codes_py)
dendik@540 21
dendik@540 22 force-codes:
dendik@540 23 rm $(codes_py)
dendik@540 24 $(MAKE) codes
dendik@540 25
dendik@534 26 $(codes_py): $(components_cif)
dendik@534 27 python allpy/data/mkcodes.py -i $< -o $@
dendik@534 28
dendik@534 29 $(components_cif):
dendik@534 30 wget -O - $(components_cif_gz_url) | zcat > $@