Introduction and initial commitment is uploaded

This blog intends to show the progress reports of Google summer of code(GSOC) 2017 project "Develop a web service which provides simulation / steady state analysis / parameter estimation with SBML models".

Today I inform you of initial commitment of this project and edit the README.md.
Thank you.

Github URL : https://github.com/TakahiroYamada/GSOC2017_SBMLModelAnalysisWebApp

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Week5 : The test server configuration

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Hi all! 1. What I did this week I mainly focused on creating test server this week. Using the server of a2hosting( https://www.a2hosting.com ) I created the server and configure the environment of this( ex : Installation of tomcat and Java8 , deploying war to tomcat etc). 1.1 Configuration of test server I created the server using a2hosting. The IP address and host name is following. IP : 162.249.4.254 Host name :  gsoctyamadaproject.com In this server, I installed Java8( http://download.oracle.com/otn-pub/java/jdk/8u131-b11/d54c1d3a095b4ff2b6607d096fa80163/jdk-8u131-linux-x64.rpm ) and Tomcat6( http://ftp.riken.jp/net/apache/tomcat/tomcat-6/v6.0.53/bin/apache-tomcat-6.0.53.tar.gz ). After that I configured some environment variables( such as JAVA_HOME and CATALINA_HOME etc). Then I send the war file of my project to this server and deployed it. Then I checked deployed URL can be connected. Fig 1.1.1 : Checking of connection to my server. Red rectangle shows that the...
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Week4 : Form to send the parameters of analysis to server side and analyse based on these parameters

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Hi all! As always I will firstly explain what I did this week and discussion. Then I will confirm the task next week. 1. What I did this week As I mentioned last week, I mainly implemented the system for users to set the parameters of analysis( ex : End time of simulation, algorithm to execute parameter estimation such as Leven-Berg Marquardt and Genetic Algorithm etc) and execute it based on these parameters. Completing this task, it is important to set the system to send these parameters as JSON format to server side. 1.1 Major Implementation : Client side html and JavaScript to send the parameters of analysis( ex End time of simulation) to server side I mainly set the "Select form" for the selection of libraries and "Input form" for the parameters. Considering AJA JSON, these form's onchange property was set and the analysis is dynamically executed when the libraries or parameters are changed. The data of library and parameters are sent to client s...
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Week9 : Numerical table of the result from simulation and parameter estimation

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Hi all 1. What I did this week I focused on the implementation of numerical table in the result of simulation and parameter estimation. 1.1 Demo of numerical table in simulation Fig1.1.1 : The table of simulation result is visualized. Each row refers to time and column refers to the species.  1.2 Demo of numerical table in parameter estimation Fig1.2.1 : The table of parameter estimation result is visualized. First column refers to the reaction ID and second column refers to the parameter ID. Third and Forth column refer to the start value of this parameter and fitted parameter respectively. [Discussion] 1) The implementation of the table I finished this implementation of table. Following table shows my current progress. Table 1 : Current implementation of visualisation UI : ○ means this is already finished and × means vice versa. Visualization UI Graphical Numerical Simulation ○ ○ Steady State Analysis × ○ Param...
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