Difference between revisions of "Eos"

Revision as of 05:59, 18 July 2014

Eos is an electron microscope image analysis software developed and published since 1996 by Takeyuki Wakabayashi and Takuo Yasunaga. Originally was a collection of programs of 50 or so. Then by software development with students, it is an integrated environment that is composed of program of about 400 on the electron microscope image processing, currently.

Overview of Eos

　Eos is named using first letters of "Extensible Object-oriented System" after the goddess of the dawn Eos in Greek mythology. We have the hope that many programs will be developed from here. We think there is a strong transmission for many of the commands and rapid development, and the development of effective programs for the user through integration. At present, it is referred to as a platform that such program environment is established, but it was called "environment" because it was not a word popular development at that time.

1996 - 2011

　Eos system supplies four types of codes. We provid two of them for Developers, other two for Users. The support for Developers of the former are Object-oriented library and Prototype and Source code, the support for Users of the latter are Small Tools of viable and Integration program that integrates them. Integration program is one that is provided as part of the command as Display2, and Makefile( In the future, integrating to PIONE with GUI) for make.

2011 -

We added the class of Experts to categories such as the Users and the Developers. One fo the Experts is the layer that can be programmed in the scripting language level and electron microscope image processing. In addition, it was running by integrating of make through shell script initially, after that the time has change when computing environment itself become cloud and cooperative computing systems, so we decided to achieve the transformation to a platform to help them. It is developing, however we aim to the Enhancement of the layers of the scripting language and the level including those related to the display, such as a GUI.

And we describe Loadmap about the direction of future development.

Supports for Users

　For users to perform an electron microscope image processing, Eos provides a program of more than 400 in 2012, and Integrated program of their such as for Electron tomography and Single particle analysis.

Commands(Small Tools)

　Idea of Eos is near to that of UNIX. On UNIX, Commands (ls/cat/grep/sed ... ) specializes in the work of each specific are provided. They are integrated by shell script, and perform large-scale works. On Eos, basically small tools are integrated by Integration Tools, and perform large-scale works (Single particle analysis or Electron tomography ...). Please refer to the page for details of each general image processing for Pre-processing and Post-processing, Commands for 3D Reconstruction, Commands for correction of EM images, List of command, and Functional order of Eos command list.

In addition, we are developing the tools to run through a browser GUI from the commands of each.

Integration Tools

On Eos, large-scale works as Electron tomography are performed by this Integration Tools. And, we provide Integration Tools that can use Object-oriented library as API. The former is integration of commands, and the latter is integration of API from library.

Provided of Makefile

電子顕微鏡画像の補正、電子線トモグラフィー、単粒子解析（参照有単粒子解析、ランダムコニカル傾斜、コモンライン型3次元再構成など）、らせん対象性をつかった3次元再構成等の基本Makefileを提供している。これらのMakefileは、更に個々のユーザー（ここでは、エキスパートと呼ぶ）により、改良され、個々の解析に利用されている。Eosでは基本的なMakefileを主として提供する。

PIONEによる提供

　現在、分散環境で実行できることを目指して、新しい統合プログラム(PIONE)の開発が急ピッチで進んでいる。既に、β版は公開されており、画像処理部分の移植が進んでいる。

統合コマンド

　Display2、ctfDisplay、molvie、smoletのように、オブジェクト指向型ライブラリやコマンド群をAPIとして用い、統合したプログラムも提供する。Display2はImageJを目指して、smoletはetomoや3dmodを目指して、作成を続けているものである。

Eos is an environment for image analysis of electron micrographs. Eos system supplies four types of codes.

• Small Tools
• Object-oriented library
• Integration Tools
• Development Tools