Add licence and setup.py script to install OBITools

epydoc.conf

+[epydoc] # Epydoc section marker (required by ConfigParser)
+
+# The list of objects to document.  Objects can be named using
+# dotted names, module filenames, or package directory names.
+# Alases for this option include "objects" and "values".
+modules: src/obitools 
+
+# The type of output that should be generated.  Should be one
+# of: html, text, latex, dvi, ps, pdf.
+output: html
+
+# The path to the output directory.  May be relative or absolute.
+target: doc/html/api
+
+# An integer indicating how verbose epydoc should be.  The default
+# value is 0; negative values will supress warnings and errors;
+# positive values will give more verbose output.
+verbosity: 0
+
+# A boolean value indicating that Epydoc should show a tracaback
+# in case of unexpected error. By default don't show tracebacks
+debug: 0
+
+# If True, don't try to use colors or cursor control when doing
+# textual output. The default False assumes a rich text prompt
+simple-term: 0
+
+
+### Generation options
+
+# The default markup language for docstrings, for modules that do
+# not define __docformat__.  Defaults to epytext.
+# default : epytext
+docformat: javadoc
+
+# Whether or not parsing should be used to examine objects.
+parse: yes
+
+# Whether or not introspection should be used to examine objects.
+introspect: yes
+
+# Don't examine in any way the modules whose dotted name match this
+# regular expression pattern.
+#exclude
+
+# Don't perform introspection on the modules whose dotted name match this
+# regular expression pattern.
+#exclude-introspect
+
+# Don't perform parsing on the modules whose dotted name match this
+# regular expression pattern.
+#exclude-parse
+
+# The format for showing inheritance objects.
+# It should be one of: 'grouped', 'listed', 'included'.
+inheritance: listed
+
+# Whether or not to inclue private variables.  (Even if included,
+# private variables will be hidden by default.)
+private: yes
+
+# Whether or not to list each module's imports.
+imports: no
+
+# Whether or not to include syntax highlighted source code in
+# the output (HTML only).
+sourcecode: yes
+
+# Whether or not to includea a page with Epydoc log, containing
+# effective option at the time of generation and the reported logs.
+include-log: yes
+
+
+### Output options
+
+# The documented project's name.
+name: OBITools
+
+# The CSS stylesheet for HTML output.  Can be the name of a builtin
+# stylesheet, or the name of a file.
+css: white
+
+# The documented project's URL.
+url: http://www.grenoble.prabi.fr/trac/OBITools
+
+# HTML code for the project link in the navigation bar.  If left
+# unspecified, the project link will be generated based on the
+# project's name and URL.
+#link: <a href="somewhere">My Cool Project</a>
+
+# The "top" page for the documentation.  Can be a URL, the name
+# of a module or class, or one of the special names "trees.html",
+# "indices.html", or "help.html"
+#top: os.path
+
+# An alternative help file.  The named file should contain the
+# body of an HTML file; navigation bars will be added to it.
+#help: my_helpfile.html
+
+# Whether or not to include a frames-based table of contents.
+frames: yes
+
+# Whether each class should be listed in its own section when
+# generating LaTeX or PDF output.
+separate-classes: no
+
+
+### API linking options
+
+# Define a new API document.  A new interpreted text role
+# will be created
+#external-api: epydoc
+
+# Use the records in this file to resolve objects in the API named NAME.
+#external-api-file: epydoc:api-objects.txt
+
+# Use this URL prefix to configure the string returned for external API.
+#external-api-root: epydoc:http://epydoc.sourceforge.net/api
+
+
+### Graph options
+
+# The list of graph types that should be automatically included
+# in the output.  Graphs are generated using the Graphviz "dot"
+# executable.  Graph types include: "classtree", "callgraph",
+# "umlclass".  Use "all" to include all graph types
+graph: all
+
+# The path to the Graphviz "dot" executable, used to generate
+# graphs.
+dotpath: /usr/local/graphviz-2.12/bin/dot
+
+# The name of one or more pstat files (generated by the profile
+# or hotshot module).  These are used to generate call graphs.
+pstat: profile.out
+
+# Specify the font used to generate Graphviz graphs.
+# (e.g., helvetica or times).
+graph-font: Helvetica
+
+# Specify the font size used to generate Graphviz graphs.
+graph-font-size: 10
+
+
+### Return value options
+
+# The condition upon which Epydoc should exit with a non-zero
+# exit status. Possible values are error, warning, docstring_warning
+#fail-on: error

setup.py

+#! /usr/bin/env python
+#
+# Edward Loper's API Documentation Generation Tool
+#
+# Created [05/27/01 09:04 PM]
+# Edward Loper
+#
+
+from distutils.core import setup
+import re, sys
+import glob
+
+from os import path
+
+def findPackage(root,base=None):
+    modules=[]
+    if base is None:
+        base=[]
+    for module in (path.basename(path.dirname(x)) 
+                   for x in glob.glob(path.join(root,'*','__init__.py'))):
+        modules.append('.'.join(base+[module]))
+        modules.extend(findPackage(path.join(root,module),base+[module]))
+    return modules
+    
+
+VERSION = '0.1.0'
+AUTHOR  = 'Eric Coissac'
+EMAIL   = 'eric.coissac@inrialpes.fr'
+URL = 'www.grenoble.prabi.fr/trac/OBITools'
+LICENSE = 'CeCILL-V2'
+
+SRC = 'src'
+
+SCRIPTS = glob.glob('%s/*.py' % SRC)
+
+SCRIPTS.append('src/fastaComplement')
+
+setup(name="OBITools",
+      description="Scripts and library for sequence analysis",
+      version=VERSION,
+      author=AUTHOR,
+      author_email=EMAIL,
+      license=LICENSE,
+      url=URL,
+      scripts=SCRIPTS,
+      package_dir = {'': SRC},
+      packages=findPackage(SRC))
+