diff --git a/README.md b/README.md index afbc57f3..aa8ecda7 100644 --- a/README.md +++ b/README.md @@ -1,8 +1,8 @@ -##DEVISER +##Deviser -*DEVISER* stands for *"Design Explorer and +*Deviser* stands for *"Design Explorer and Viewer for Iterative SBML Enhancement of Representations"*. @@ -28,14 +28,14 @@ Computation modeling has become a crucial aspect of biological research, and [SB [LibSBML](http://sbml.org/Software/libSBML) is a free, open-source programming library to help you read, write, manipulate, translate, and validate SBML files and data streams. Support for SBML Level 3 packages can be added by integrating the package specific code and building with the package enabled. - SBML Level 3 is being developed as a core with additional optional packages. DEVISER facilitates the development of these packages by providing a means of creating a basic specification, UML diagrams and code for integration with libSBML. + SBML Level 3 is being developed as a core with additional optional packages. Deviser facilitates the development of these packages by providing a means of creating a basic specification, UML diagrams and code for integration with libSBML. -DEVISER is written in Python and is compatible with Python version 2.6 onwards. +Deviser is written in Python and is compatible with Python version 2.6 onwards. -## Using DEVISER ## +## Using Deviser ## The Deviser Edit tool allows you to quickly define an SBML L3 package. It then provides the following functionality @@ -51,7 +51,7 @@ There is command line version of the function that can be used to invoke the dev deviser.py [--generate][--latex] input-file.xml -This program will use a DEVISER xml file, and generate either a C++ +This program will use a Deviser xml file, and generate either a C++ libSBML extension for it, or generate a LaTeX scaffold for its specification. @@ -77,7 +77,7 @@ The Deviser Edit tool does not (yet) work on Mac OS X systems. However the comm ## Other resources ## -Not all of the following are necessary as what is necessary depends on which operating system is being used and which DEVISER functionality is required. These links are given as a quick reference. +Not all of the following are necessary as what is necessary depends on which operating system is being used and which Deviser functionality is required. These links are given as a quick reference. [libSBML source code](https://sourceforge.net/projects/sbml/files/libsbml/5.11.4/stable/libSBML-5.11.4-core-src.tar.gz/download) @@ -93,7 +93,7 @@ Not all of the following are necessary as what is necessary depends on which ope ## Acknowledgments ## -We achnowledge funding for DEVISER from the National Institutes of Health (USA) under +We achnowledge funding for Deviser from the National Institutes of Health (USA) under grant R01 GM070923. diff --git a/docs/DEVISER_MANUAL.pdf b/docs/DEVISER_MANUAL.pdf index 9ac1e92f..5d56ad07 100644 Binary files a/docs/DEVISER_MANUAL.pdf and b/docs/DEVISER_MANUAL.pdf differ diff --git a/docs/src/DEVISER_MANUAL.docx b/docs/src/DEVISER_MANUAL.docx index 81f8de2d..ccdb5e31 100644 Binary files a/docs/src/DEVISER_MANUAL.docx and b/docs/src/DEVISER_MANUAL.docx differ