kozo2

class MassActionFluxProcess:
    def __init__(self, k_value, volume, reactants):
        self.volume = volume
        self.k_value = k_value
        self.reactants = reactants
        self.N_A = 6.0221367e+23

    def __call__(self, variable_array, time):
        velocity = self.k_value * self.volume * self.N_A
        for r in self.reactants:

kozo2

import rlcompleter
import pdb
pdb.Pdb.complete = rlcompleter.Completer(locals()).complete 

kozo2

from Bio import SeqIO
uniprot = SeqIO.index("uniprot_sprot.dat", "swiss")
handle = open("selected.dat", "w")
for acc in ["P33487", "P19801", "P13689", "Q8JZQ5", "Q9TRC7"]:
  handle.write(uniprot.get_raw(acc))
handle.close()

kozo2

import XMonad
import XMonad.Prompt
import XMonad.Prompt.Window
import XMonad.Util.EZConfig
import XMonad.Util.NamedScratchpad
import XMonad.Hooks.FadeInactive
import Anekos.Config.Layout (myLayoutHook)
import Anekos.Config.Layout (myLayoutPrompt)

scratchpads = [ NS "emacs" "emacs" (className =? "Emacs") nonFloating

kozo2

import urllib2
from bs4 import BeautifulSoup
import re

MAP_HTML_URL = "http://www.genome.jp/kegg/pathway/map/map01100.html"
HSA_HTML_URL = "http://www.genome.jp/kegg-bin/show_pathway?org_name=hsa&mapno=01100&mapscale=1.0&show_description=show"
HSA_KGML_URL = "http://www.genome.jp/kegg-bin/download?entry=hsa01100&format=kgml"
rid_pat = re.compile("R[0-9]{5}")

hoge = urllib2.urlopen(MAP_HTML_URL)

kozo2

/* NEW BSD LICENSE {{{
Copyright (c) 2009-2012, kozo2.
All rights reserved.

Redistribution and use in source and binary forms, with or without modification,
are permitted provided that the following conditions are met:

    1. Redistributions of source code must retain the above copyright notice,
       this list of conditions and the following disclaimer.
    2. Redistributions in binary form must reproduce the above copyright notice,

kozo2

helm.el, unite.vimでもっとemacs, vimを知ろう

2012/11/10 KOF2012
kozo2

何故emacs, vimを知ろうと提案するのか?

• eclipseなどがある今でもやはり知っておいた方がよい
  • IDEを使えない開発環境
• 特にemacsはprogramming以外にも有用
• server設定など雑務

kozo2

    # epdp model print functions
    #for k,v in m.species.iteritems():
    #    print "s" + k + " = " + "model.Species('" + v.str_simple() + "', 1.5e-12, 5e-9)"
    #    print "m.add_species_type(s" + k + ")"

    #counter = 0
    #for result in reaction_results:
    #    for reaction in result.reactions:
    #        counter = counter + 1

kozo2

tcvime.vimでVimでもT-code

T-codeとは

• Googleしてください。
• こわくない tcvime.vimとかtc3があれば
• まずはひらがなだけT-codeできるようになろう
  • eelll/JS がおすすめ http://www.sato.kuis.kyoto-u.ac.jp/~yuse/tcode/eljs/index.html
• ひらがながT-codeできるようになったらtcvime.vimを使おう
• tcvime.vimのひらがなを漢字に変換する機能を用いて、よく変換すると感じた漢字からゆっくりと覚えていくとよい。
• ujihisaさんのように 根性でいっきに漢字まで覚えようとしないこと

kozo2

[kozo2@kozo2s-Mac-mini]~/projects/ecell3% make
make  all-recursive
Making all in libltdl
make  all-am
/bin/sh ./libtool --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I.   -I/usr/local/opt/boost149/include  -g -O2 -c -o ltdl.lo ltdl.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I/usr/local/opt/boost149/include -g -O2 -c ltdl.c  -fno-common -DPIC -o .libs/ltdl.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I/usr/local/opt/boost149/include -g -O2 -c ltdl.c -o ltdl.o >/dev/null 2>&1
/bin/sh ./libtool --tag=CC   --mode=link gcc  -g -O2  -L/usr/local/opt/boost149/lib -o libltdlc.la  ltdl.lo -ldl 
libtool: link: ar cru .libs/libltdlc.a .libs/ltdl.o 
libtool: link: ranlib .libs/libltdlc.a