| age |
author |
description |
| Sun, 31 Oct 2010 13:08:17 +0300 |
boris |
start to change geometrical_core tool on single-pdb-usage scheme |
| Thu, 28 Oct 2010 20:35:29 +0400 |
boris (netbook) |
pdb_auto_add: corrected check if true pdb-file exists |
| Thu, 28 Oct 2010 19:33:15 +0400 |
boris (netbook) |
fix fasta.long_line |
| Thu, 28 Oct 2010 19:26:02 +0400 |
boris (netbook) |
fix. memory leak fixed |
| Thu, 28 Oct 2010 15:16:24 +0400 |
boris (netbook) |
sec_str: don't run project.pdb_auto_add |
| Thu, 28 Oct 2010 08:14:23 +0400 |
boris |
fix. delete sequence.pdb_files on pdb_unload. however memory leak remains |
| Thu, 28 Oct 2010 00:51:27 +0400 |
boris |
pdb_unload added, but memory leaks remain |
| Thu, 28 Oct 2010 00:37:06 +0400 |
boris |
optimization: load the PDB file only one time |
| Wed, 27 Oct 2010 08:25:11 +0400 |
boris |
implemented |
| Tue, 26 Oct 2010 22:23:09 +0400 |
boris |
fix project.secstr |
| Tue, 26 Oct 2010 21:53:23 +0400 |
boris |
idea implemented: pdb and sec_str data moved from monomer to sequence |
| Tue, 26 Oct 2010 13:32:19 +0400 |
boris (netbook) |
idea to prevent lack of memory |
| Tue, 26 Oct 2010 00:40:36 +0400 |
boris (netbook) |
day commit -- a lot of changes |
| Mon, 25 Oct 2010 13:30:11 +0400 |
boris (netbook) |
documentation improvements |
| Mon, 25 Oct 2010 00:03:35 +0400 |
boris |
everwhere: mkstemp --> NamedTemporaryFile. unlink useless temp files |
| Sun, 24 Oct 2010 23:17:24 +0400 |
boris |
documentation improvements |
| Sun, 24 Oct 2010 23:12:15 +0400 |
boris |
documentation improvements |
| Sun, 24 Oct 2010 22:25:36 +0400 |
boris |
lib: superimpose comleted, pdb_save in progress... |
| Sun, 24 Oct 2010 20:33:54 +0400 |
boris |
fix |
| Sun, 24 Oct 2010 20:31:07 +0400 |
boris |
fixes. GC: input msf added |
| Sun, 24 Oct 2010 19:05:31 +0400 |
boris |
project.from_fasta improvements |
| Sun, 24 Oct 2010 18:40:39 +0400 |
boris |
geomatrical_core: fasta and msf output |
| Sun, 24 Oct 2010 18:24:21 +0400 |
boris |
geometrical_core: list output |
| Sun, 24 Oct 2010 18:15:41 +0400 |
boris |
geometrical_core.py: run building of GCs |
| Sun, 24 Oct 2010 18:12:21 +0400 |
boris |
sequence.pdb_auto_add |
| Sun, 24 Oct 2010 17:29:59 +0400 |
boris |
allpy_pdb: new fasta id parsing function |
| Sun, 24 Oct 2010 17:06:15 +0400 |
boris |
block, project: gap charecter can be changed, when save to fasta |
| Sun, 24 Oct 2010 16:58:06 +0400 |
boris |
geometrical_core: add ugly validators |
| Sun, 24 Oct 2010 16:30:44 +0400 |
boris |
geometrical_core: parser completed |
| Sun, 24 Oct 2010 11:54:02 +0400 |
boris |
geometrical core fasta output |
| Sun, 24 Oct 2010 11:44:11 +0400 |
boris |
lib.block remove useless import copy |
| Sun, 24 Oct 2010 11:42:21 +0400 |
boris |
lib.block -- copy of sequences --> link to old sequences, when create from block |
| Sun, 24 Oct 2010 10:59:38 +0400 |
boris |
lib.block.__init__ explicit copy |
| Sun, 24 Oct 2010 00:32:48 +0400 |
boris |
geometrical_cores: ac_count -- -1 means infinity |
| Sun, 24 Oct 2010 00:26:18 +0400 |
boris |
broken: lib::block::geometrical_cores returns list of blocks |
| Sun, 24 Oct 2010 00:02:24 +0400 |
boris |
geometrical_core -> test.py |
| Sat, 23 Oct 2010 23:57:51 +0400 |
boris |
broken: lib::block::geometrical_core -> geometrical_cores (GC -> GCs) |
| Sat, 23 Oct 2010 23:56:31 +0400 |
boris |
lib::block::__init__ copy sequences list |
| Sat, 23 Oct 2010 23:50:50 +0400 |
boris |
Backed out changeset 9f96bc38bc3d |
| Sat, 23 Oct 2010 23:32:52 +0400 |
boris |
broken: lib::block::geometrical_core retirns block, not position list |
| Sat, 23 Oct 2010 23:29:18 +0400 |
boris |
lib::block::xstring (rename it, please) |
| Sat, 23 Oct 2010 23:16:38 +0400 |
boris |
lib::block::geometrical_core fixes |
| Sat, 23 Oct 2010 23:06:48 +0400 |
boris |
lib::block fix geometrical_core -- pass test |
| Sat, 23 Oct 2010 22:45:35 +0400 |
boris |
lib::block geometrical_core completed, not tested |
| Sat, 23 Oct 2010 21:32:52 +0400 |
boris |
lib:: graph fix some bugs |
| Sat, 23 Oct 2010 21:07:26 +0400 |
boris |
lib::graph documentation |
| Sat, 23 Oct 2010 20:59:22 +0400 |
boris |
lib::graph -- improvement of code and fix of bug in add_node function |
| Sat, 23 Oct 2010 20:29:40 +0400 |
boris |
lib: graph.py -- class Graph with clique builbing functions |
| Sat, 23 Oct 2010 13:19:10 +0400 |
boris |
block.positions -- should be sorted list |
| Sat, 23 Oct 2010 13:18:05 +0400 |
boris |
help corrected |
| Sat, 23 Oct 2010 13:17:33 +0400 |
boris |
fix |
| Sat, 23 Oct 2010 13:16:12 +0400 |
boris |
broken: lib::block::to_fasta -> save_fasta |
| Sat, 23 Oct 2010 12:57:07 +0400 |
boris |
broken: lib::project::column -- new returning value |
| Sat, 23 Oct 2010 12:07:21 +0400 |
boris |
fixes |
| Fri, 22 Oct 2010 17:16:37 +0400 |
boris (netbook) |
Sequence::add_pdb_chain... |
| Fri, 22 Oct 2010 17:12:39 +0400 |
boris (netbook) |
Sequence::from_fasta -> Sequence::from_str |
| Fri, 22 Oct 2010 17:09:22 +0400 |
boris (netbook) |
rename type to monomer_kind in Sequence::from_fasta |
| Fri, 22 Oct 2010 17:07:51 +0400 |
boris (netbook) |
merge |
| Fri, 22 Oct 2010 17:07:21 +0400 |
boris (netbook) |
broken: lib:Sequence new argument order in constructor |
| Thu, 21 Oct 2010 15:22:36 +0400 |
Daniil Alexeyevsky |
lib: renamed monomer_type to either type or monomer_kind where appropriate |
