import libsbml
document = libsbml.readSBML('BMID000000140222.xml')model = document.getModel()
Kozo Nishida kozo2
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| PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> | |
| PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#> | |
| PREFIX owl: <http://www.w3.org/2002/07/owl#> | |
| PREFIX xsd: <http://www.w3.org/2001/XMLSchema#> | |
| PREFIX dc: <http://purl.org/dc/elements/1.1/> | |
| PREFIX dcterms: <http://purl.org/dc/terms/> | |
| PREFIX foaf: <http://xmlns.com/foaf/0.1/> | |
| PREFIX skos: <http://www.w3.org/2004/02/skos/core#> | |
| PREFIX sbmlrdf: <http://identifiers.org/biomodels.vocabulary#> |
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| > biopax = readBiopax("biopax-level3.owl") | |
| Found a BioPAX level 3 OWL. Parsing... | |
| [Info Verbose] Parsing Biopax-Model as a data.table... | |
| [Info Verbose] Estimating up to 439065 entries. This will roughly need 97 MB of RAM. | |
| [Info Verbose] Where I came from this would've taken at least 1317 seconds! | |
| [Info Verbose] Internal Rowcount: 8192 Instance: UnificationXref144348 | |
| [Info Verbose] Internal Rowcount: 16384 Instance: UnificationXref133936 | |
| [Info Verbose] Internal Rowcount: 24576 Instance: UnificationXref123794 | |
| [Info Verbose] Internal Rowcount: 32768 Instance: UnificationXref114026 |
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| ==> R CMD check DiffCorr_0.2.tar.gz | |
| * using log directory ‘/home/kozo2/Documents/DiffCorr.Rcheck’ | |
| * using R version 3.1.2 (2014-10-31) | |
| * using platform: x86_64-pc-linux-gnu (64-bit) | |
| * using session charset: UTF-8 | |
| * checking for file ‘DiffCorr/DESCRIPTION’ ... OK | |
| * checking extension type ... Package | |
| * this is package ‘DiffCorr’ version ‘0.2’ | |
| * checking package namespace information ... OK |
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| ==> R CMD build DiffCorr | |
| * checking for file ‘DiffCorr/DESCRIPTION’ ... OK | |
| * preparing ‘DiffCorr’: | |
| * checking DESCRIPTION meta-information ... OK | |
| * checking for LF line-endings in source and make files | |
| * checking for empty or unneeded directories | |
| * building ‘DiffCorr_0.2.tar.gz’ | |
| ==> R CMD check DiffCorr_0.2.tar.gz |
kozo2
/ path2models.rst
Created
December 17, 2014 05:11
import requestscompounds = requests.get('http://rest.kegg.jp/list/compound')for line in compounds.content.split('\n'):
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| <!DOCTYPE html> | |
| <html> | |
| <head> | |
| <meta charset=utf-8 /> | |
| <title>Animated BFS</title> | |
| <script src="require.js"></script> | |
| <script src="jquery-2.1.3.min.js"></script> | |
| <style type="text/css"> | |
| body { | |
| font: 14px helvetica neue, helvetica, arial, sans-serif; |
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| (require 'package) | |
| (let* ((no-ssl (and (memq system-type '(windows-nt ms-dos)) | |
| (not (gnutls-available-p)))) | |
| (proto (if no-ssl "http" "https"))) | |
| ;; Comment/uncomment these two lines to enable/disable MELPA and MELPA Stable as desired | |
| (add-to-list 'package-archives (cons "melpa" (concat proto "://melpa.org/packages/")) t) | |
| ;;(add-to-list 'package-archives (cons "melpa-stable" (concat proto "://stable.melpa.org/packages/")) t) | |
| (when (< emacs-major-version 24) | |
| ;; For important compatibility libraries like cl-lib | |
| (add-to-list 'package-archives '("gnu" . (concat proto "://elpa.gnu.org/packages/"))))) |
- Download the latest release of the Docker for Windows Installer
- Download the latest release of the UltraVNC
- Run the Boot2Docker Start shell script from your Desktop or Program Files > Boot2Docker for Windows.
- Run following command
docker run -p 5901:5901 -it ecell/spatiocyte:latest /bin/bash
- Now you are in Docker container, then run follwing command
kozo2
/ spfw.R
Last active
August 29, 2015 14:18
— forked from kohske/spfw.R
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| library(gtable) | |
| d=data.frame(g=c(1,1,1,2,2,3),x=c(1,2,3,1,2,3),y=1:6); | |
| p = ggplot(d,aes(x,y))+geom_bar(stat="identity")+facet_wrap(~g) | |
| gt= ggplot_gtable(ggplot_build(g)) | |
| graphics.off() | |
| for (p in c(4, 7, 10)) { | |
| pdf(paste0("plot-", p, ".pdf")) | |
| grid.draw(gt[,c(1:3, p, 12)]) |