Differences between revisions 9 and 39 (spanning 30 versions)

EMEN2 Dependencies

For basic client usage, no dependencies are required beyond the basic Python environment; the GUI clients require PyQt4. See EMEN2/EMDash for more information.

On the database server side, Berkeley DB and bsddb3 are required for basic functionality. If you want to run the web server, you will also need Twisted, Markdown, and Mako. Additional server features, such as thumbnails and plotting, are provided by EMAN2 and ImageMagick.

Please note that we include all EMEN2 dependencies in the EMAN2 binary distribution's Python environment. This is the recommended installation, and generally how we run it ourselves.

Python Environment

Python 2.6 or 2.7
- Note: do not use Python 3.0+
- http://www.python.org

Core Database

Berkeley DB 5.x+
- BDB is the storage and transactional backend for EMEN2
- Note: Relatively recent 4.8.2x release are probably OK as well
- http://www.oracle.com/technology/software/products/berkeley-db/index.html
bsddb3 5.x+
- Python bindings for Berkeley DB
- Note: Relatively recent 4.8.2x release are probably OK as well
- http://www.jcea.es/programacion/pybsddb.htm
- "easy_install bsddb3"
dateutil
- A library for accurate manipulation of dates and times
- http://labix.org/python-dateutil
- "easy_install dateutil"

Web Server

Mako Templates (latest)
- A simple, fast templating system for Python
- http://www.makotemplates.org/
- "easy_install mako"
Twisted 10.x+
- An event-driven networking engine written in Python
- http://twistedmatrix.com/trac/
- "easy_install twisted"
Markdown
- Simplified rich-text editing
- "easy_install Markdown"

Web Server: Optional

EMAN2 (highly recommended)
- EMAN2 is optionally used to generate browsable micrograph previews.
- http://ncmi.bcm.edu/ncmi/software/counter_222/software_86
ImageMagick (recommended)
- Thumbnail and document preview support for "normal" image formats (jpg, png, etc.)
- Commonly installed on Linux
- http://www.imagemagick.org/
pyOpenSSL
- Network encryption
- "easy_install pyOpenSSL"

-  ⇤ ← Revision 9 as of 2010-03-29 08:06:34 → 
  Size: 1156
  Editor: root
  Comment:
+   ← Revision 39 as of 2012-03-12 08:56:28 → ⇥
  Size: 2200
  Editor: IanRees
  Comment:
-Deletions are marked like this.
+Additions are marked like this.
 Line 1:
-EMEN2 requires the following packages to be installed:
+= EMEN2 Dependencies =
 Line 3:
-* Python 2.6+ (not 3.0)
 http://www.python.org
+For basic client usage, no dependencies are required beyond the basic Python environment; the GUI clients require PyQt4. See [[EMEN2/EMDash]] for more information.

On the database server side, Berkeley DB and bsddb3 are required for basic functionality. If you want to run the web server, you will also need Twisted, Markdown, and Mako. Additional server features, such as thumbnails and plotting, are provided by EMAN2 and ImageMagick.

Please note that we include all EMEN2 dependencies in the EMAN2 binary distribution's Python environment. This is the recommended installation, and generally how we run it ourselves.

== Python Environment ==

 * Python 2.6 or 2.7
  * Note: do not use Python 3.0+
  * http://www.python.org
-Line 7:
+Line 16:
-* Berkeley DB 4.8.24+
 BDB is the storage and transactional backend for EMEN2
 http://www.oracle.com/technology/software/products/berkeley-db/index.html
+== Core Database ==
-Line 11:
+Line 18:
+ * Berkeley DB 5.x+
  * BDB is the storage and transactional backend for EMEN2
  * Note: Relatively recent 4.8.2x release are probably OK as well
  * http://www.oracle.com/technology/software/products/berkeley-db/index.html
-Line 12:
+Line 23:
-* bsddb3 4.8.4+ (latest)
 Python bindings for Berkeley DB
 http://www.jcea.es/programacion/pybsddb.htm
 "easy_install bsddb3"
+ * bsddb3 5.x+
  * Python bindings for Berkeley DB
  * Note: Relatively recent 4.8.2x release are probably OK as well  
  * http://www.jcea.es/programacion/pybsddb.htm
  * "easy_install bsddb3"
-Line 17:
+Line 29:
+ * dateutil
  * A library for accurate manipulation of dates and times
  * http://labix.org/python-dateutil
  * "easy_install dateutil"
-Line 18:
+Line 34:
-* Mako Templates (latest)
 A simple, fast templating system for Python
 http://www.makotemplates.org/
 "easy_install makotemplates"
+== Web Server ==
-Line 23:
+Line 36:
+ * Mako Templates (latest)
  * A simple, fast templating system for Python
  * http://www.makotemplates.org/ 
  * "easy_install mako"
-Line 24:
+Line 41:
-* demjson (latest)
 A fast, compliant JSON module
 http://deron.meranda.us/python/demjson/
 "easy_install demjson"
 * note: EMEN2 may use the Python json standard library in the future
+ * Twisted 10.x+
  * An event-driven networking engine written in Python
  * http://twistedmatrix.com/trac/ 
  * "easy_install twisted"
-Line 30:
+Line 46:
+ * Markdown
  * Simplified rich-text editing
  * "easy_install Markdown"
-Line 31:
+Line 50:
-* Twisted 10.x+
 An event-driven networking engine written in Python
 http://twistedmatrix.com/trac/
 "easy_install twisted"
+== Web Server: Optional ==
-Line 36:
+Line 52:
+ * EMAN2 (highly recommended)
  * EMAN2 is optionally used to generate browsable micrograph previews.
  * http://ncmi.bcm.edu/ncmi/software/counter_222/software_86
-Line 37:
+Line 56:
-* PyYAML (latest)
 Configuration file is YAML-based
 "easy_install yaml"
+ * ImageMagick (recommended)
  * Thumbnail and document preview support for "normal" image formats (jpg, png, etc.)
  * Commonly installed on Linux
  * http://www.imagemagick.org/
-Line 41:
+Line 61:
-* pyOpenSSL
 Network encryption
 "easy_install pyOpenSSL"


* EMAN2
 EMAN2 is optionally used to generate browsable micrograph previews.
 http://ncmi.bcm.edu/ncmi/software/counter_222/software_86
+ * pyOpenSSL
  * Network encryption 
  * "easy_install pyOpenSSL"