Menu
▾
▴
[sbml-svn] SF.net SVN: sbml:[21757] trunk/libsbml/dev/misc-files/ readmes-for-downloads-new-dir-struct/stable
|
From: <mh...@us...> - 2014-11-25 22:50:43
|
Revision: 21757
http://sourceforge.net/p/sbml/code/21757
Author: mhucka
Date: 2014-11-25 22:50:30 +0000 (Tue, 25 Nov 2014)
Log Message:
-----------
Updated and revised README files for upcoming new release.
Modified Paths:
--------------
trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/README.md.in
trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/linux/32-bit/README.md.in
trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/linux/32-bit/R_interface/README.md.in
trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/linux/64-bit/README.md.in
trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/linux/64-bit/R_interface/README.md.in
trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/linux/README.md.in
trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/macos/README.md.in
trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/macos/R_interface/README.md.in
trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/windows/32-bit/README.md.in
trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/windows/32-bit/R_interface/README.md.in
trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/windows/32-bit/python/README.md.in
trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/windows/64-bit/README.md.in
trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/windows/64-bit/R_interface/README.md.in
trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/windows/64-bit/python/README.md.in
trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/windows/README.md.in
Modified: trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/README.md.in
===================================================================
--- trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/README.md.in 2014-11-25 17:24:06 UTC (rev 21756)
+++ trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/README.md.in 2014-11-25 22:50:30 UTC (rev 21757)
@@ -1,7 +1,6 @@
-##libSBML @PACKAGE_VERSION@
+## **libSBML @PACKAGE_VERSION@**
-This directory contains the stable release of libSBML @PACKAGE_VERSION@. Here you
-will find the following:
+This directory contains the stable release of **libSBML @PACKAGE_VERSION@**. Here you will find the following:
* [Mac OS X](Mac%20OS%20X) -- folder of binary installers for Mac OS X systems
* [Windows](Windows) -- folder of binary installers for Microsoft Windows systems
@@ -12,36 +11,30 @@
* [libSBML-@PAC...@-c...](libSBML-@PAC...@-c...) -- source code (only), zip archive
* [libSBML-@PAC...@-c...](libSBML-@PAC...@-c...) -- source code (only), gzip'ed tar archive
-Source code for full stable release (core plus accepted packages):
+Source code for full libSBML (core SBML Levels 1-3 plus accepted SBML Level 3 packages):
* [libSBML-@PAC...@-c...](libSBML-@PAC...@-c...) -- source code (only), zip archive
* [libSBML-@PAC...@-c...](libSBML-@PAC...@-c...) -- source code (only), gzip'ed tar archive
-Source code for individual accepted packages:
+Source code for individual, accepted SBML Level 3 packages *only*:
* [libSBML-@PAC...@-c...](libSBML-@PAC...@-c...) -- source code (only), zip archive
* [libSBML-@PAC...@-f...](libSBML-@PAC...@-f...) -- source code (only), zip archive
* [libSBML-@PAC...@-q...](libSBML-@PAC...@-q...) -- source code (only), zip archive
- (Note for historical reasons the layout code is included within the core code archives.)
+(Note: for historical reasons, the code for the SBML Layout package is included in the core libSBML distribution.)
Documentation:
* [libSBML-@PAC...@-d...](libSBML-@PAC...@-d...) -- formatted documentation (only), zip archive
* [libSBML-@PAC...@-d...](libSBML-@PAC...@-d...) -- formatted documentation (only), gzip'ed tar archive
-(Note about the documentation archives: after downloading an archive,
-make sure to `unzip`/`untar` it before opening `docs/index.html`. If you
-simply browse the compressed archive [e.g., using Windows Explorer],
-the links inside `index.html` will not work.)
+(Note: after downloading a documentation archive, **make sure to `unzip`/`untar` it** before opening the file `docs/index.html`. If you simply browse the compressed archive [e.g., using Windows Explorer], the links inside `index.html` will not work.)
-For more information about libSBML, please visit the libSBML website at
- [http://sbml.org/Software/libSBML](http://sbml.org/Software/libSBML)
+For more information about libSBML, please [visit the libSBML website](http://sbml.org/Software/libSBML).
-
Thank you for your interest in libSBML!
The LibSBML Team.
-
-
+[](http://sbml.org)
Modified: trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/linux/32-bit/README.md.in
===================================================================
--- trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/linux/32-bit/README.md.in 2014-11-25 17:24:06 UTC (rev 21756)
+++ trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/linux/32-bit/README.md.in 2014-11-25 22:50:30 UTC (rev 21757)
@@ -1,67 +1,54 @@
-##libSBML @PACKAGE_VERSION@
-###Installers for 32-bit Linux operating systems
+## **libSBML @PACKAGE_VERSION@ installers for 32-bit Linux operating systems**
-IMPORTANT: Please uninstall any existing copy of libSBML located in
-the same destination on your computer before you install libSBML using
-these installers, or you may end up with mixed versions of different
-libSBML components on your system.
+**Important**: Before you install libSBML using these installers, please **uninstall any existing copy of libSBML** located in the same destination on your computer, or you may end up with mixed versions of different libSBML components on your system.
-This directory contains installers for precompiled versions of libSBML
-for 32-bit Linux systems. All copies were built using the libxml2 XML
-parser library and contain code for libSBML core plus any accepted SBML L3
-packages. The following language interfaces are also contained:
+### **_C, C++, C#, Java, Javascript, Perl, R and Ruby installers_**
+
+This directory contains installers for precompiled versions of libSBML @PACKAGE_VERSION@ for 32-bit Linux systems. They were built with the libxml2 parser library, and include accepted SBML Level 3 packages plus interfaces for the following programming languages:
+
+* C
+* C++
* C# (Mono)
* Java
+* Javascript
* Perl
* Ruby
-Here you will find the following files:
+[The directory named "R interface"](R interface) contains the standalone installer for the R libSBML library, without the other languages. For the remaining languages listed above, download one of the following installer files and run it:
- * [libSBML-@PAC...@-L...](libSBML-@PAC...@-L...)
- -- for RPM-based Linux distributions (Fedora, Red Hat, CentOS)
+* [libSBML-@PAC...@-L...](libSBML-@PAC...@-L...) -- for RPM-based Linux distributions (Fedora, Red Hat, CentOS)
+* [libSBML-@PAC...@-L...](libSBML-@PAC...@-L...) -- for Debian-based Linux distributions (Ubuntu & variants, Debian)
+* [libSBML-@PAC...@-L...](libSBML-@PAC...@-L...) -- an archive containing just the binary files built for CentOS
+* [libSBML-@PAC...@-L...](libSBML-@PAC...@-L...) -- an archive containing just the binary files built for Ubuntu
- * [libSBML-@PAC...@-L...](libSBML-@PAC...@-L...)
- -- for Debian-based Linux distributions (Ubuntu & variants, Debian)
+By default, the installer will put libSBML into `/usr`. Detailed information about how to make libSBML accessible to your software [is available on a separate web page](http://sbml.org/Software/libSBML/docs/cpp-api/libsbml-accessing.html).
- * [libSBML-@PAC...@-L...](libSBML-@PAC...@-L...)
- -- an archive containing just the binary files built for centos
- * [libSBML-@PAC...@-L...](libSBML-@PAC...@-L...)
- -- an archive containing just the binary files built for ubuntu
+### **_Python installers_**
- * [R interface](R%20interface)
- -- This folder contains installer for the R libSBML interface ONLY.
-
-By default, the installer will put the contents in /usr.
+If you are primarily interested in Python, we provide two better options for installing libSBML for Python:
-For detailed information about how to make libSBML accessible to your
-software, please visit the following URL:
+* **_Using PiPI_**: First, make sure you have the following prerequisite software packages installed on your operating system: `python-dev`, `libxml2-dev`, `libz-dev`, and `libbz2-dev`. Then, you can use the following command to install libSBML for Python: `sudo pip install python-libsbml`
-[http://sbml.org/Software/libSBML/docs/cpp-api/libsbml-accessing.html](http://sbml.org/Software/libSBML/docs/cpp-api/libsbml-accessing.html)
+* **_Using `apt-get` or `yum`_**: Python installers for use with `apt-get` or `yum` for various Linux distributions can be obtained from the [Open Build Service](http://software.opensuse.org/download.html?project=home%3Afbergman%3Alibsbml&package=python-libsbml "Open Build Service").
-####Python installers
-Python installers for various Linux distributions can be obtained from the [Open Build Service](http://software.opensuse.org/download.html?project=home%3Afbergman%3Alibsbml&package=python-libsbml "Open Build Service").
-
-If you need the MATLAB/Octave language interfaces, or need to use a
-different XML parser library, it will be necessary to build libSBML yourself
-from the source distribution using suitable configuration flags. The
-procedure is described in the libSBML documentation. The source and
-documentation are available from the top-level download directory,
-[http://sourceforge.net/projects/sbml/files/libsbml/@PACKAGE_VERSION@](http://sourceforge.net/projects/sbml/files/libsbml/@PACKAGE_VERSION@)
+After you have installed the Python libSBML library, follow the instructions for [how to access libSBML](http://sbml.org/Software/libSBML/docs/python-api/libsbml-accessing.html).
-For additional information about this version of libSBML, please see
-the documentation or visit the libSBML website at
-[http://sbml.org/Software/libSBML](http://sbml.org/Software/libSBML)
+### **_MATLAB and Octave_**
-Please report any problems with libSBML using the tracker at
+If you need the MATLAB/Octave language interfaces, or need to use a different XML parser library, it will be necessary to build libSBML yourself from the source distribution using suitable configuration flags. The procedure is described in [the libSBML documentation](http://sbml.org/Software/libSBML/docs/cpp-api/libsbml-installation.html). The source and documentation are available from the top-level download directory, [http://sourceforge.net/projects/sbml/files/libsbml/@PACKAGE_VERSION@](http://sourceforge.net/projects/sbml/files/libsbml/@PACKAGE_VERSION@).
-[http://sbml.org/Software/libSBML/issue-tracker](http://sbml.org/Software/libSBML/issue-tracker)
+### **_Additional information_**
+
+For additional information about this version of libSBML, please see the documentation or [visit the libSBML website](http://sbml.org/Software/libSBML).
+
+Please report problems using our tracker: [http://sbml.org/Software/libSBML/issue-tracker](http://sbml.org/Software/libSBML/issue-tracker)
+
Thank you for your interest in libSBML!
The LibSBML Team.
-
Modified: trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/linux/32-bit/R_interface/README.md.in
===================================================================
--- trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/linux/32-bit/R_interface/README.md.in 2014-11-25 17:24:06 UTC (rev 21756)
+++ trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/linux/32-bit/R_interface/README.md.in 2014-11-25 22:50:30 UTC (rev 21757)
@@ -1,20 +1,26 @@
-##libSBML @PACKAGE_VERSION@
-###R interface installer for 32 bit Linux
+## **libSBML @PACKAGE_VERSION@ installers for R for 32-bit Linux operating systems**
-This directory contains the release of the libSBML @PACKAGE_VERSION@
-R bindings generated for R 2.15.2 on a 32 bit Linux operating system.
+This directory contains the libSBML @PACKAGE_VERSION@ installer for R, generated for R version 3 on a 32-bit Linux operating system.
-Install with:
+### **_How to install libSBML for R_**
- R CMD INSTALL <archivename>
+After downloading the installer archive file, you can use one of two approaches to installing the libSBML R interface in your environment:
-For more information about libSBML, please visit the libSBML website at
- [http://sbml.org/Software/libSBML](http://sbml.org/Software/libSBML)
+* **_Using the R GUI_**: In the R menu **"Packages"** or **"Packages & Data"** (depending on your operating system), select the item **"Package Installer"**. You will be presented with an interface that lets you install a local binary package. Use the interface to navigate to the directory where you copied the libSBML archive file, and select the archive file for installation.
+* **_Using a terminal/shell command_**: Suppose that the path to the libSBML R archive on your computer is _path_to_archive_. Execute the following command in a terminal/shell window (note: _not_ in the R command line interpreter!): **`R CMD INSTALL path_to_archive`**. Here, **`R`** is the executable for the command-line version of R; we assume it is accessible from your shell's command line, but if it is not accessible by simply typing `R`, you may need to supply the full path to the R executable on your computer.
+Once you have installed the R libSBML library, follow the instructions for [how to access libSBML](http://sbml.org/Software/libSBML/docs/cpp-api/libsbml-accessing.html).
+
+
+### **_Additional information_**
+
+For additional information about this version of libSBML, please see the documentation or [visit the libSBML website](http://sbml.org/Software/libSBML).
+
+Please report problems using our tracker: [http://sbml.org/Software/libSBML/issue-tracker](http://sbml.org/Software/libSBML/issue-tracker)
+
Thank you for your interest in libSBML!
The LibSBML Team.
-
Modified: trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/linux/64-bit/README.md.in
===================================================================
--- trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/linux/64-bit/README.md.in 2014-11-25 17:24:06 UTC (rev 21756)
+++ trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/linux/64-bit/README.md.in 2014-11-25 22:50:30 UTC (rev 21757)
@@ -1,67 +1,54 @@
-##libSBML @PACKAGE_VERSION@
-###Installers for 64-bit Linux operating systems
+## **libSBML @PACKAGE_VERSION@ installers for 64-bit Linux operating systems**
-IMPORTANT: Please uninstall any existing copy of libSBML located in
-the same destination on your computer before you install libSBML using
-these installers, or you may end up with mixed versions of different
-libSBML components on your system.
+**Important**: Before you install libSBML using these installers, please **uninstall any existing copy of libSBML** located in the same destination on your computer, or you may end up with mixed versions of different libSBML components on your system.
-This directory contains installers for precompiled versions of libSBML
-for 64-bit Linux systems. All copies were built using the libxml2 XML
-parser library and contain code for libSBML core plus any accepted SBML L3
-packages. The following language interfaces are also contained:
+### **_C, C++, C#, Java, Javascript, Perl, R and Ruby installers_**
+
+This directory contains installers for precompiled versions of libSBML @PACKAGE_VERSION@ for 64-bit Linux systems. They were built with the libxml2 parser library, and include accepted SBML Level 3 packages plus interfaces for the following programming languages:
+
+* C
+* C++
* C# (Mono)
* Java
+* Javascript
* Perl
* Ruby
-Here you will find the following files:
+[The directory named "R interface"](R interface) contains the standalone installer for the R libSBML library, without the other languages. For the remaining languages listed above, download one of the following installer files and run it:
- * [libSBML-@PAC...@-L...](libSBML-@PAC...@-L...)
- -- for RPM-based Linux distributions (Fedora, Red Hat, CentOS)
+* [libSBML-@PAC...@-L...](libSBML-@PAC...@-L...) -- for RPM-based Linux distributions (Fedora, Red Hat, CentOS)
+* [libSBML-@PAC...@-L...](libSBML-@PAC...@-L...) -- for Debian-based Linux distributions (Ubuntu & variants, Debian)
+* [libSBML-@PAC...@-L...](libSBML-@PAC...@-L...) -- an archive containing just the binary files built for CentOS
+* [libSBML-@PAC...@-L...](libSBML-@PAC...@-L...) -- an archive containing just the binary files built for Ubuntu
- * [libSBML-@PAC...@-L...](libSBML-@PAC...@-L...)
- -- for Debian-based Linux distributions (Ubuntu & variants, Debian)
+By default, the installer will put libSBML into `/usr`. Detailed information about how to make libSBML accessible to your software [is available on a separate web page](http://sbml.org/Software/libSBML/docs/cpp-api/libsbml-accessing.html).
- * [libSBML-@PAC...@-L...](libSBML-@PAC...@-L...)
- -- an archive containing just the binary files built for centos
- * [libSBML-@PAC...@-L...](libSBML-@PAC...@-L...)
- -- an archive containing just the binary files built for ubuntu
+### **_Python installers_**
- * [R interface](R%20interface)
- -- This folder contains installer for the R libSBML interface ONLY.
-
-By default, the installer will put the contents in `/usr`.
+If you are primarily interested in Python, we provide two better options for installing libSBML for Python:
-For detailed information about how to make libSBML accessible to your
-software, please visit the following URL:
+* **_Using PiPI_**: First, make sure you have the following prerequisite software packages installed on your operating system: `python-dev`, `libxml2-dev`, `libz-dev`, and `libbz2-dev`. Then, you can use the following command to install libSBML for Python: `sudo pip install python-libsbml`
-[http://sbml.org/Software/libSBML/docs/cpp-api/libsbml-accessing.html](http://sbml.org/Software/libSBML/docs/cpp-api/libsbml-accessing.html)
+* **_Using `apt-get` or `yum`_**: Python installers for use with `apt-get` or `yum` for various Linux distributions can be obtained from the [Open Build Service](http://software.opensuse.org/download.html?project=home%3Afbergman%3Alibsbml&package=python-libsbml "Open Build Service").
-####Python installers
-Python installers for various Linux distributions can be obtained from the [Open Build Service](http://software.opensuse.org/download.html?project=home%3Afbergman%3Alibsbml&package=python-libsbml "Open Build Service").
+After you have installed the Python libSBML library, follow the instructions for [how to access libSBML](http://sbml.org/Software/libSBML/docs/python-api/libsbml-accessing.html).
-If you need the MATLAB/Octave language interfaces, or need to use a
-different XML parser library, it will be necessary to build libSBML yourself
-from the source distribution using suitable configuration flags. The
-procedure is described in the libSBML documentation. The source and
-documentation are available from the top-level download directory,
-[http://sourceforge.net/projects/sbml/files/libsbml/@PACKAGE_VERSION@](http://sourceforge.net/projects/sbml/files/libsbml/@PACKAGE_VERSION@)
-For additional information about this version of libSBML, please see
-the documentation or visit the libSBML website at
+### **_MATLAB and Octave_**
-[http://sbml.org/Software/libSBML](http://sbml.org/Software/libSBML)
+If you need the MATLAB/Octave language interfaces, or need to use a different XML parser library, it will be necessary to build libSBML yourself from the source distribution using suitable configuration flags. The procedure is described in [the libSBML documentation](http://sbml.org/Software/libSBML/docs/cpp-api/libsbml-installation.html). The source and documentation are available from the top-level download directory, [http://sourceforge.net/projects/sbml/files/libsbml/@PACKAGE_VERSION@](http://sourceforge.net/projects/sbml/files/libsbml/@PACKAGE_VERSION@).
-Please report any problems with libSBML using the tracker at
-[http://sbml.org/Software/libSBML/issue-tracker](http://sbml.org/Software/libSBML/issue-tracker)
+### **_Additional information_**
+For additional information about this version of libSBML, please see the documentation or [visit the libSBML website](http://sbml.org/Software/libSBML).
+
+Please report problems using our tracker: [http://sbml.org/Software/libSBML/issue-tracker](http://sbml.org/Software/libSBML/issue-tracker)
+
Thank you for your interest in libSBML!
The LibSBML Team.
-
Modified: trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/linux/64-bit/R_interface/README.md.in
===================================================================
--- trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/linux/64-bit/R_interface/README.md.in 2014-11-25 17:24:06 UTC (rev 21756)
+++ trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/linux/64-bit/R_interface/README.md.in 2014-11-25 22:50:30 UTC (rev 21757)
@@ -1,20 +1,26 @@
-##libSBML @PACKAGE_VERSION@
-###R interface installer for 64 bit Linux
+## **libSBML @PACKAGE_VERSION@ installers for R for 64-bit Linux operating systems**
-This directory contains the release of the libSBML @PACKAGE_VERSION@
-R bindings generated for R 2.15.2 on a 64 bit Linux operating systems.
+This directory contains the libSBML @PACKAGE_VERSION@ installer for R, generated for R version 3 on a 64-bit Linux operating system.
-Install with:
+### **_How to install libSBML for R_**
- R CMD INSTALL <archivename>
+After downloading the installer archive file, you can use one of two approaches to installing the libSBML R interface in your environment:
-For more information about libSBML, please visit the libSBML website at
- [http://sbml.org/Software/libSBML](http://sbml.org/Software/libSBML)
+* **_Using the R GUI_**: In the R menu **"Packages"** or **"Packages & Data"** (depending on your operating system), select the item **"Package Installer"**. You will be presented with an interface that lets you install a local binary package. Use the interface to navigate to the directory where you copied the libSBML archive file, and select the archive file for installation.
+* **_Using a terminal/shell command_**: Suppose that the path to the libSBML R archive on your computer is _path_to_archive_. Execute the following command in a terminal/shell window (note: _not_ in the R command line interpreter!): **`R CMD INSTALL path_to_archive`**. Here, **`R`** is the executable for the command-line version of R; we assume it is accessible from your shell's command line, but if it is not accessible by simply typing `R`, you may need to supply the full path to the R executable on your computer.
+Once you have installed the R libSBML library, follow the instructions for [how to access libSBML](http://sbml.org/Software/libSBML/docs/cpp-api/libsbml-accessing.html).
+
+
+### **_Additional information_**
+
+For additional information about this version of libSBML, please see the documentation or [visit the libSBML website](http://sbml.org/Software/libSBML).
+
+Please report problems using our tracker: [http://sbml.org/Software/libSBML/issue-tracker](http://sbml.org/Software/libSBML/issue-tracker)
+
Thank you for your interest in libSBML!
The LibSBML Team.
-
Modified: trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/linux/README.md.in
===================================================================
--- trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/linux/README.md.in 2014-11-25 17:24:06 UTC (rev 21756)
+++ trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/linux/README.md.in 2014-11-25 22:50:30 UTC (rev 21757)
@@ -1,48 +1,13 @@
-##libSBML @PACKAGE_VERSION@
-###Installers for Linux operating systems
+## **libSBML @PACKAGE_VERSION@ installers for Linux operating systems**
-IMPORTANT: Please uninstall any existing copy of libSBML located in
-the same destination on your computer before you install libSBML using
-these installers, or you may end up with mixed versions of different
-libSBML components on your system.
+Please navigate to either the [32-bit](32-bit) or [64-bit](64-bit) folders, to match the version of the operating system you are using. There you will find installers built using the libxml2 XML parser library and containing code for core libSBML plus accepted SBML Level 3 packages.
-This directory contains installers for precompiled versions of libSBML
-for Linux systems. All copies were built using the libxml2 XML parser
-library and contain code for libSBML core plus any accepted SBML L3
-packages. The following language interfaces are also contained:
+For additional information about this version of libSBML, please see the documentation or [visit the libSBML website](http://sbml.org/Software/libSBML).
-* C# (Mono)
-* Java
-* Perl
-* Ruby
-
-* R (as a separate installer)
+Please report problems using our tracker: [http://sbml.org/Software/libSBML/issue-tracker](http://sbml.org/Software/libSBML/issue-tracker)
-Please navigate to either the [32-bit](32-bit) or [64-bit](64-bit) folders, to match the
-version of the operating system you are using.
-
-####Python installers
-Python installers for various Linux distributions can be obtained from the [Open Build Service](http://software.opensuse.org/download.html?project=home%3Afbergman%3Alibsbml&package=python-libsbml "Open Build Service").
-
-If you need the MATLAB/Octave language interfaces, or need to use a
-different XML parser library, it will be necessary to build libSBML yourself
-from the source distribution using suitable configuration flags. The
-procedure is described in the libSBML documentation. The source and
-documentation are available from the top-level download directory,
-[http://sourceforge.net/projects/sbml/files/libsbml/@PACKAGE_VERSION@](http://sourceforge.net/projects/sbml/files/libsbml/@PACKAGE_VERSION@)
-
-For additional information about this version of libSBML, please see
-the documentation or visit the libSBML website at
-
-[http://sbml.org/Software/libSBML](http://sbml.org/Software/libSBML)
-
-Please report any problems with libSBML using the tracker at
-
-[http://sbml.org/Software/libSBML/issue-tracker](http://sbml.org/Software/libSBML/issue-tracker)
-
Thank you for your interest in libSBML!
The LibSBML Team.
-
-
+[](http://sbml.org)
Modified: trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/macos/README.md.in
===================================================================
--- trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/macos/README.md.in 2014-11-25 17:24:06 UTC (rev 21756)
+++ trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/macos/README.md.in 2014-11-25 22:50:30 UTC (rev 21757)
@@ -1,54 +1,62 @@
-##libSBML @PACKAGE_VERSION@
-###Installers for Mac OS X operating systems
+## **libSBML @PACKAGE_VERSION@ installers for Mac OS X operating systems**
-IMPORTANT: Please uninstall any existing copy of libSBML located in
-the same destination on your computer before you install libSBML using
-these installers, or you may end up with mixed versions of different
-libSBML components on your system.
+**Important**: Before you install libSBML using these installers, please **uninstall any existing copy of libSBML** located in the same destination on your computer, or you may end up with mixed versions of different libSBML components on your system.
-This directory contains installers for precompiled versions of libSBML for
-Mac OS X systems. All were built with the Apple-supplied libxml2 XML parser
-library and contain code for libSBML core plus any accepted SBML L3 packages.
-The following language interfaces are also contained:
+### **_C, C++, C#, Java, Javascript, Perl, Python, and R installers_**
+
+This directory contains installers for precompiled versions of libSBML for Mac OS X systems. They were built with the Apple-supplied version of the libxml2 parser library, and include accepted SBML Level 3 packages plus interfaces for the following programming languages:
+
+* C
+* C++
* C# (Mono)
* Java
+* Javascript
* MATLAB
* Perl
-* Python
+* Python (but see below for a better option)
* Ruby
-If you need the Octave language interface, or need to use a different
-XML parser library, it will be necessary to build libSBML yourself
-from the source distribution using suitable configuration flags.
-The procedure is described in the libSBML documentation. The source
-and documentation are available from the top-level download directory,
-[http://sourceforge.net/projects/sbml/files/libsbml/@PACKAGE_VERSION@](http://sourceforge.net/projects/sbml/files/libsbml/@PACKAGE_VERSION@)
+[The directory named "R interface"](R interface) contains the standalone installer for the R libSBML library, without the other languages.
-By default, the installer will put the contents in `/usr/local`, but
-this location can be changed from the installer interface.
+By default, the installer will put libSBML into /usr. Detailed information about how to make libSBML accessible to your software [is available on a separate web page](http://sbml.org/Software/libSBML/docs/cpp-api/libsbml-accessing.html).
-To uninstall libSBML, please run the following command in your
-terminal:
- sudo /usr/local/bin/uninstall-libsbml-pkg.sh
+### **_Python installer_**
-(If you chose to install libSBML into a directory tree other than
-`/usr/local`, then please look for the `uninstall-libsbml-pkg.sh` script
-in the `bin` directory of that alternate location.)
+If you are primarily interested in Python, we provide a simpler solution for installing libSBML using PiPI. First, make sure you have the following prerequisite software packages installed on your operating system: `python-dev`, `libxml2-dev`, `libz-dev`, and `libbz2-dev` (or their equivalents for your specific environment). Then, you can use the following command to install libSBML for Python:
-For additional information about this version of libSBML, please see
-the documentation or visit the libSBML website at
+```
+sudo pip install python-libsbml
+```
-[http://sbml.org/Software/libSBML](http://sbml.org/Software/libSBML)
+After you have installed the Python libSBML library, follow the instructions for [how to access libSBML](http://sbml.org/Software/libSBML/docs/python-api/libsbml-accessing.html).
-Please report problems with libSBML using the tracker at
-[http://sbml.org/Software/libSBML/issue-tracker](http://sbml.org/Software/libSBML/issue-tracker)
+### **_MATLAB and Octave_**
+If you need the MATLAB/Octave language interfaces, or need to use a different XML parser library, it will be necessary to build libSBML yourself from the source distribution using suitable configuration flags. The procedure is described in [the libSBML documentation](http://sbml.org/Software/libSBML/docs/cpp-api/libsbml-installation.html). The source and documentation are available from the top-level download directory, [http://sourceforge.net/projects/sbml/files/libsbml/@PACKAGE_VERSION@](http://sourceforge.net/projects/sbml/files/libsbml/@PACKAGE_VERSION@).
+
+
+### **_How to uninstall libSBML_**
+
+To uninstall libSBML, please run the following command in your terminal:
+
+```
+sudo /usr/local/bin/uninstall-libsbml-pkg.sh
+```
+
+(If you chose to install libSBML into a directory tree other than `/usr/local`, then please look for the `uninstall-libsbml-pkg.sh` script in the `bin` directory of that alternate location.)
+
+
+### **_Additional information_**
+
+For additional information about this version of libSBML, please see the documentation or [visit the libSBML website](http://sbml.org/Software/libSBML).
+
+Please report problems using our tracker: [http://sbml.org/Software/libSBML/issue-tracker](http://sbml.org/Software/libSBML/issue-tracker)
+
Thank you for your interest in libSBML!
The LibSBML Team.
-
Modified: trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/macos/R_interface/README.md.in
===================================================================
--- trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/macos/R_interface/README.md.in 2014-11-25 17:24:06 UTC (rev 21756)
+++ trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/macos/R_interface/README.md.in 2014-11-25 22:50:30 UTC (rev 21757)
@@ -1,20 +1,26 @@
-##libSBML @PACKAGE_VERSION@
-###R interface installer for Mac OS X
+## **libSBML @PACKAGE_VERSION@ installers for R for Mac OS X operating systems**
-This directory contains the release of the libSBML @PACKAGE_VERSION@
-R bindings generated for R 2.15.2 on Mac OS X systems.
+This directory contains the libSBML @PACKAGE_VERSION@ installer for R, generated for R version 3 on a Mac OS X operating system.
-Install with:
+### **_How to install libSBML for R_**
- R CMD INSTALL <archivename>
+After downloading the installer archive file, you can use one of two approaches to installing the libSBML R interface in your environment:
-For more information about libSBML, please visit the libSBML website at
- [http://sbml.org/Software/libSBML](http://sbml.org/Software/libSBML)
+* **_Using the R GUI_**: In the R menu **"Packages"** or **"Packages & Data"** (depending on your operating system), select the item **"Package Installer"**. You will be presented with an interface that lets you install a local binary package. Use the interface to navigate to the directory where you copied the libSBML archive file, and select the archive file for installation.
+* **_Using a terminal/shell command_**: Suppose that the path to the libSBML R archive on your computer is _path_to_archive_. Execute the following command in a terminal/shell window (note: _not_ in the R command line interpreter!): **`R CMD INSTALL path_to_archive`**. Here, **`R`** is the executable for the command-line version of R; we assume it is accessible from your shell's command line, but if it is not accessible by simply typing `R`, you may need to supply the full path to the R executable on your computer.
+Once you have installed the R libSBML library, follow the instructions for [how to access libSBML](http://sbml.org/Software/libSBML/docs/cpp-api/libsbml-accessing.html).
+
+
+### **_Additional information_**
+
+For additional information about this version of libSBML, please see the documentation or [visit the libSBML website](http://sbml.org/Software/libSBML).
+
+Please report problems using our tracker: [http://sbml.org/Software/libSBML/issue-tracker](http://sbml.org/Software/libSBML/issue-tracker)
+
Thank you for your interest in libSBML!
The LibSBML Team.
-
Modified: trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/windows/32-bit/README.md.in
===================================================================
--- trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/windows/32-bit/README.md.in 2014-11-25 17:24:06 UTC (rev 21756)
+++ trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/windows/32-bit/README.md.in 2014-11-25 22:50:30 UTC (rev 21757)
@@ -1,73 +1,47 @@
-##libSBML @PACKAGE_VERSION@
-###Installers for 32-bit Microsoft Windows operating systems
+## **libSBML @PACKAGE_VERSION@ installers for 32-bit Microsoft Windows operating systems**
-IMPORTANT: Please uninstall any existing copy of libSBML located in
-the same destination on your computer before you install libSBML using
-these installers, or you may end up with mixed versions of different
-libSBML components on your system.
+**Important**: Before you install libSBML using these installers, please **uninstall any existing copy of libSBML** located in the same destination on your computer, or you may end up with mixed versions of different libSBML components on your system.
-This directory contains installers for precompiled versions of libSBML for
-Microsoft Windows 32-bit systems. All copies were built using the libxml2
-XML parser library and contain code for libSBML core plus any accepted SBML
-L3 packages. The following language interfaces are also contained:
+### **_C, C++, C#, Java, Javascript, MATLAB, Perl, and Ruby installers_**
+
+This directory contains installers for precompiled versions of libSBML @PACKAGE_VERSION@ for 32-bit Microsoft Windows systems. They were built with the libxml2 parser library, and include accepted SBML Level 3 packages plus interfaces for the following programming languages:
+
+* C
+* C++
* C# (Mono)
* Java
+* Javascript
* MATLAB
-* Octave
* Perl
* Ruby
Here you will find the following files:
- * [libSBML-@PAC...@-w...](libSBML-@PAC...@-w...)
+* [libSBML-@PAC...@-w...](libSBML-@PAC...@-w...) -- Complete libSBML binary distribution.
- Complete libSBML binary distribution.
+* [libSBML-@PAC...@-w...](libSBML-@PAC...@-w...) -- Installer for the MATLAB libSBML interface **only**. Download this if you **only** need to use libSBML from MATLAB. (This installer is also contained within [libSBML-@PAC...@-w...](libSBML-@PAC...@-w...), so if you downloaded that one, you do _not_ need this one too.) This MATLAB interface supports SBML core and the SBML Level 3 FBC package only.
- * [libSBML-@PAC...@-w...](libSBML-@PAC...@-w...)
+To use these installers, download the appropriate file to your computer, then run the file, and follow the instructions displayed by the installer program on your screen.
- Installer for the MATLAB libSBML interface ONLY. Download this
- if you ONLY need to use libSBML from MATLAB. (This installer is
- also contained within [libSBML-@PAC...@-w...](libSBML-@PAC...@-w...), so if you
- downloaded that, you do NOT need to download and install this
- MATLAB interface installer in addition.)
-
- (Note: The MATLAB interface supports SBML core and the L3 fbc package only.)
- * [Python](Python)
+### **_Python installer_**
- This folder contains installers for the Python libSBML interface
- ONLY, for different versions of Python. Download and use one of
- these installers if you only need the Python interface. (The
- interface is also included within [libSBML-@PAC...@-w...](libSBML-@PAC...@-w...), so
- if you downloaded that, you do NOT need to download and install
- the Python interface installer separately.)
+The [Python folder](Python) contains installers for the Python libSBML interface **only**. Download and use one of these installers if you **only** need the Python interface. (The interface is also included within [libSBML-@PAC...@-w...](libSBML-@PAC...@-w...), so if you downloaded that one, you do _not_ need this one too.)
- * [R interface](R%20interface)
+### **_R installer_***
- This folder contains installer for the R libSBML interface ONLY.
+The [R interface](R%20interface) folder contains installer for the R libSBML interface **only**.
-To use these installers, simply download the appropriate file to your
-computer, then run the file, and follow the instructions displayed by
-the installer program on your screen.
-For detailed information about how to make libSBML accessible to your
-software, please visit the following URL:
+### **_Additional information_**
-[http://sbml.org/Software/libSBML/docs/cpp-api/libsbml-accessing.html](http://sbml.org/Software/libSBML/docs/cpp-api/libsbml-accessing.html)
+For additional information about this version of libSBML, please see the documentation or [visit the libSBML website](http://sbml.org/Software/libSBML).
-For additional information about this version of libSBML, please see
-the documentation or visit the libSBML website at
+Please report problems using our tracker: [http://sbml.org/Software/libSBML/issue-tracker](http://sbml.org/Software/libSBML/issue-tracker)
-[http://sbml.org/Software/libSBML](http://sbml.org/Software/libSBML)
-
-Please report any problems with libSBML using the tracker at
-
-[http://sbml.org/Software/libSBML/issue-tracker](http://sbml.org/Software/libSBML/issue-tracker)
-
Thank you for your interest in libSBML!
The LibSBML Team.
-
Modified: trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/windows/32-bit/R_interface/README.md.in
===================================================================
--- trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/windows/32-bit/R_interface/README.md.in 2014-11-25 17:24:06 UTC (rev 21756)
+++ trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/windows/32-bit/R_interface/README.md.in 2014-11-25 22:50:30 UTC (rev 21757)
@@ -1,20 +1,26 @@
-##libSBML @PACKAGE_VERSION@
-###R interface installer for 32 bit Windows
+## **libSBML @PACKAGE_VERSION@ installers for R for 32-bit Microsoft Windows operating systems**
-This directory contains the release of the libSBML @PACKAGE_VERSION@
-R bindings generated for R 2.15.2 for 32 bit Windows operating systems.
+This directory contains the libSBML @PACKAGE_VERSION@ installer for R, generated for R version 3 on a 32-bit Microsoft Windows operating system.
-Install with:
+### **_How to install libSBML for R_**
- R CMD INSTALL <archivename>
+After downloading the installer archive file, you can use one of two approaches to installing the libSBML R interface in your environment:
-For more information about libSBML, please visit the libSBML website at
- [http://sbml.org/Software/libSBML](http://sbml.org/Software/libSBML)
+* **_Using the R GUI_**: In the R menu **"Packages"** or **"Packages & Data"** (depending on your operating system), select the item **"Package Installer"**. You will be presented with an interface that lets you install a local binary package. Use the interface to navigate to the directory where you copied the libSBML archive file, and select the archive file for installation.
+* **_Using a terminal/shell command_**: Suppose that the path to the libSBML R archive on your computer is _path_to_archive_. Execute the following command in a terminal/shell window (note: _not_ in the R command line interpreter!): **`R CMD INSTALL path_to_archive`**. Here, **`R`** is the executable for the command-line version of R; we assume it is accessible from your shell's command line, but if it is not accessible by simply typing `R`, you may need to supply the full path to the R executable on your computer.
+Once you have installed the R libSBML library, follow the instructions for [how to access libSBML](http://sbml.org/Software/libSBML/docs/cpp-api/libsbml-accessing.html).
+
+
+### **_Additional information_**
+
+For additional information about this version of libSBML, please see the documentation or [visit the libSBML website](http://sbml.org/Software/libSBML).
+
+Please report problems using our tracker: [http://sbml.org/Software/libSBML/issue-tracker](http://sbml.org/Software/libSBML/issue-tracker)
+
Thank you for your interest in libSBML!
The LibSBML Team.
-
Modified: trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/windows/32-bit/python/README.md.in
===================================================================
--- trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/windows/32-bit/python/README.md.in 2014-11-25 17:24:06 UTC (rev 21756)
+++ trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/windows/32-bit/python/README.md.in 2014-11-25 22:50:30 UTC (rev 21757)
@@ -1,34 +1,31 @@
-##libSBML @PACKAGE_VERSION@
-###Python interface installer for 32-bit Windows operating systems
+## **libSBML @PACKAGE_VERSION@ Python interface installers for 32-bit Microsoft Windows operating systems**
-IMPORTANT: Please uninstall any existing copy of libSBML located in
-the same destination on your computer before you install libSBML using
-these installers, or you may end up with mixed versions of different
-libSBML components on your system.
+**Important**: Before you install libSBML using these installers, please **uninstall any existing copy of libSBML** located in the same destination on your computer, or you may end up with mixed versions of different libSBML components on your system.
-This directory contains the Python-only installers for libSBML. Each file
-contains ONLY the precompiled Python interface plus the core libSBML native
-library. Download this if you only need to use libSBML from Python and do
-not need the rest of the libSBML distribution.
-For detailed information about how to make libSBML accessible to your
-software, please visit the following URL:
+### **_Python installers_**
-[http://sbml.org/Software/libSBML/docs/python-api/libsbml-accessing.html](http://sbml.org/Software/libSBML/docs/python-api/libsbml-accessing.html)
+This directory contains the Python-only installers for libSBML. Each file contains **only** the precompiled Python interface plus the core libSBML native library. Download this if you only need to use libSBML from Python and do not need to use other programming languages with libSBML.
-Documentation for the libSBML Python API is available for downloading from
-[http://sourceforge.net/projects/sbml/files/libsbml/@PACKAGE_VERSION@/](http://sourceforge.net/projects/sbml/files/libsbml/@PACKAGE_VERSION@/) and it
-is available for viewing online at
+To use the installers, download the appropriate file for your particular environment, then run the file, and follow the instructions presented.
-[http://sbml.org/Software/libSBML/docs/python-api](http://sbml.org/Software/libSBML/docs/python-api)
+After you have installed the Python libSBML library on your computer, you should be able to access the libSBML library without further effort. For example, the following should work from Python:
-Please report any problems with libSBML using the tracker at
+```
+from libsbml import *
+```
-[http://sbml.org/Software/libSBML/issue-tracker](http://sbml.org/Software/libSBML/issue-tracker)
+If that fails, please check the instructions for [how to access libSBML](http://sbml.org/Software/libSBML/docs/python-api/libsbml-accessing.html).
+
+### **_Additional information_**
+
+For additional information about this version of libSBML, please see the documentation or [visit the libSBML website](http://sbml.org/Software/libSBML).
+
+Please report problems using our tracker: [http://sbml.org/Software/libSBML/issue-tracker](http://sbml.org/Software/libSBML/issue-tracker)
+
Thank you for your interest in libSBML!
The LibSBML Team.
-
Modified: trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/windows/64-bit/README.md.in
===================================================================
--- trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/windows/64-bit/README.md.in 2014-11-25 17:24:06 UTC (rev 21756)
+++ trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/windows/64-bit/README.md.in 2014-11-25 22:50:30 UTC (rev 21757)
@@ -1,72 +1,47 @@
-##libSBML @PACKAGE_VERSION@
-###Installers for 64-bit Microsoft Windows operating systems
+## **libSBML @PACKAGE_VERSION@ installers for 64-bit Microsoft Windows operating systems**
-IMPORTANT: Please uninstall any existing copy of libSBML located in
-the same destination on your computer before you install libSBML using
-these installers, or you may end up with mixed versions of different
-libSBML components on your system.
+**Important**: Before you install libSBML using these installers, please **uninstall any existing copy of libSBML** located in the same destination on your computer, or you may end up with mixed versions of different libSBML components on your system.
-This directory contains installers for precompiled versions of libSBML for
-Microsoft Windows 32-bit systems. All copies were built using the libxml2
-XML parser library and contain code for libSBML core plus any accepted SBML
-L3 packages. The following language interfaces are also contained:
+### **_C, C++, C#, Java, Javascript, MATLAB, Perl, and Ruby installers_**
+
+This directory contains installers for precompiled versions of libSBML @PACKAGE_VERSION@ for 64-bit Microsoft Windows systems. They were built with the libxml2 parser library, and include accepted SBML Level 3 packages plus interfaces for the following programming languages:
+
+* C
+* C++
* C# (Mono)
* Java
+* Javascript
* MATLAB
* Perl
* Ruby
Here you will find the following files:
- * [libSBML-@PAC...@-w...](libSBML-@PAC...@-w...)
+* [libSBML-@PAC...@-w...](libSBML-@PAC...@-w...) -- Complete libSBML binary distribution.
- Complete libSBML binary distribution.
+* [libSBML-@PAC...@-w...](libSBML-@PAC...@-w...) -- Installer for the MATLAB libSBML interface **only**. Download this if you **only** need to use libSBML from MATLAB. (This installer is also contained within [libSBML-@PAC...@-w...](libSBML-@PAC...@-w...), so if you downloaded that one, you do _not_ need this one too.) This MATLAB interface supports SBML core and the SBML Level 3 FBC package only.
- * [libSBML-@PAC...@-w...](libSBML-@PAC...@-w...)
+To use these installers, download the appropriate file to your computer, then run the file, and follow the instructions displayed by the installer program on your screen.
- Installer for the MATLAB libSBML interface ONLY. Download this
- if you ONLY need to use libSBML from MATLAB. (This installer is
- also contained within [libSBML-@PAC...@-w...](libSBML-@PAC...@-w...), so if you
- downloaded that, you do NOT need to download and install this
- MATLAB interface installer in addition.)
-
- (Note: The MATLAB interface supports SBML core and the L3 fbc package only.)
- * [Python](Python)
+### **_Python installer_**
- This folder contains installers for the Python libSBML interface
- ONLY, for different versions of Python. Download and use one of
- these installers if you only need the Python interface. (The
- interface is also included within [libSBML-@PAC...@-w...](libSBML-@PAC...@-w...), so
- if you downloaded that, you do NOT need to download and install
- the Python interface installer separately.)
+The [Python folder](Python) contains installers for the Python libSBML interface **only**. Download and use one of these installers if you **only** need the Python interface. (The interface is also included within [libSBML-@PAC...@-w...](libSBML-@PAC...@-w...), so if you downloaded that one, you do _not_ need this one too.)
- * [R interface](R%20interface)
-
- This folder contains installer for the R libSBML interface ONLY.
+### **_R installer_***
-To use these installers, simply download the appropriate file to your
-computer, then run the file, and follow the instructions displayed by
-the installer program on your screen.
+The [R interface](R%20interface) folder contains installer for the R libSBML interface **only**.
-For detailed information about how to make libSBML accessible to your
-software, please visit the following URL:
-[http://sbml.org/Software/libSBML/docs/cpp-api/libsbml-accessing.html](http://sbml.org/Software/libSBML/docs/cpp-api/libsbml-accessing.html)
+### **_Additional information_**
-For additional information about this version of libSBML, please see
-the documentation or visit the libSBML website at
+For additional information about this version of libSBML, please see the documentation or [visit the libSBML website](http://sbml.org/Software/libSBML).
-[http://sbml.org/Software/libSBML](http://sbml.org/Software/libSBML)
+Please report problems using our tracker: [http://sbml.org/Software/libSBML/issue-tracker](http://sbml.org/Software/libSBML/issue-tracker)
-Please report any problems with libSBML using the tracker at
-
-[http://sbml.org/Software/libSBML/issue-tracker](http://sbml.org/Software/libSBML/issue-tracker)
-
Thank you for your interest in libSBML!
The LibSBML Team.
-
Modified: trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/windows/64-bit/R_interface/README.md.in
===================================================================
--- trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/windows/64-bit/R_interface/README.md.in 2014-11-25 17:24:06 UTC (rev 21756)
+++ trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/windows/64-bit/R_interface/README.md.in 2014-11-25 22:50:30 UTC (rev 21757)
@@ -1,20 +1,26 @@
-##libSBML @PACKAGE_VERSION@
-###R interface installer for 64 bit Windows
+## **libSBML @PACKAGE_VERSION@ installers for R for 64-bit Microsoft Windows operating systems**
-This directory contains the release of the libSBML @PACKAGE_VERSION@
-R bindings generated for R 2.15.2 for 64 bit Windows operating systems.
+This directory contains the libSBML @PACKAGE_VERSION@ installer for R, generated for R version 3 on a 64-bit Microsoft Windows operating system.
-Install with:
+### **_How to install libSBML for R_**
- R CMD INSTALL <archivename>
+After downloading the installer archive file, you can use one of two approaches to installing the libSBML R interface in your environment:
-For more information about libSBML, please visit the libSBML website at
- [http://sbml.org/Software/libSBML](http://sbml.org/Software/libSBML)
+* **_Using the R GUI_**: In the R menu **"Packages"** or **"Packages & Data"** (depending on your operating system), select the item **"Package Installer"**. You will be presented with an interface that lets you install a local binary package. Use the interface to navigate to the directory where you copied the libSBML archive file, and select the archive file for installation.
+* **_Using a terminal/shell command_**: Suppose that the path to the libSBML R archive on your computer is _path_to_archive_. Execute the following command in a terminal/shell window (note: _not_ in the R command line interpreter!): **`R CMD INSTALL path_to_archive`**. Here, **`R`** is the executable for the command-line version of R; we assume it is accessible from your shell's command line, but if it is not accessible by simply typing `R`, you may need to supply the full path to the R executable on your computer.
+Once you have installed the R libSBML library, follow the instructions for [how to access libSBML](http://sbml.org/Software/libSBML/docs/cpp-api/libsbml-accessing.html).
+
+
+### **_Additional information_**
+
+For additional information about this version of libSBML, please see the documentation or [visit the libSBML website](http://sbml.org/Software/libSBML).
+
+Please report problems using our tracker: [http://sbml.org/Software/libSBML/issue-tracker](http://sbml.org/Software/libSBML/issue-tracker)
+
Thank you for your interest in libSBML!
The LibSBML Team.
-
Modified: trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/windows/64-bit/python/README.md.in
===================================================================
--- trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/windows/64-bit/python/README.md.in 2014-11-25 17:24:06 UTC (rev 21756)
+++ trunk/libsbml/dev/misc-files/readmes-for-downloads-new-dir-struct/stable/windows/64-bit/python/README.md.in 2014-11-25 22:50:30 UTC (rev 21757)
@@ -1,34 +1,31 @@
-##libSBML @PACKAGE_VERSION@
-###Python interface installer for 64-bit Windows operating systems
+## **libSBML @PACKAGE_VERSION@ Python interface installers for 64-bit Microsoft Windows operating systems**
-IMPORTANT: Please uninstall any existing copy of libSBML located in
-the same destination on your computer before you install libSBML using
-these installers, or you may end up with mixed versions of different
-libSBML components on your system.
+**Important**: Before you install libSBML using these installers, please **uninstall any existing copy of libSBML** located in the same destination on your computer, or you may end up with mixed versions of different libSBML components on your system.
-This directory contains the Python-only installers for libSBML. Each file
-contains ONLY the precompiled Python interface plus the core libSBML native
-library. Download this if you only need to use libSBML from Python and do
-not need the rest of the libSBML distribution.
-For detailed information about how to make libSBML accessible to your
-software, please visit the following URL:
+### **_Python installers_**
-[http://sbml.org/Software/libSBML/docs/python-api/libsbml-accessing.html](http://sbml.org/Software/libSBML/docs/python-api/libsbml-accessing.html)
+This directory contains the Python-only installers for libSBML. Each file contains **only** the precompiled Python interface plus the core libSBML native library. Download this if you only nee...
[truncated message content] |
){kind=link}
