a

Author: mathieuvaldeyron

sequence_analysis/.eggs/README.txt

@@ -0,0 +1,6 @@
+This directory contains eggs that were downloaded by setuptools to build, test, and run plug-ins.
+
+This directory caches those eggs to prevent repeated downloads.
+
+However, it is safe to delete this directory.
+

sequence_analysis/.eggs/openalea.deploy-2.0.0-py3.12.egg/EGG-INFO/DESCRIPTION.rst

@@ -0,0 +1,304 @@
+========================
+openalea.deploy
+========================
+
+.. {# pkglts, doc
+
+
+.. image:: https://badge.fury.io/py/openalea.deploy.svg
+    :alt: PyPI version
+    :target: https://badge.fury.io/py/openalea.deploy
+
+.. #}
+
+OpenAlea.Deploy support the installation of OpenAlea packages via the network and manage their dependencies. It is an extension of Setuptools. 
+
+**Authors** : S. Dufour-Kowalski, C. Pradal
+
+**Contributors** : OpenAlea Consortium
+
+**Institutes** : INRIA/CIRAD/INRA
+
+**Type** : Pure Python package
+
+**Status** : Devel
+
+**License** : CeCILL-C
+
+
+About
+------
+
+OpenAlea.Deploy support the installation of OpenAlea packages via the network and manage
+their dependencies .
+It is an extension of Setuptools_.
+
+
+
+**Additional Features** :
+   * Discover and manage packages in EGG format
+   * Declare shared libraries directory and include directories
+   * Call SCons scripts
+   * Create namespaces if necessary
+   * Support post_install scripts
+   * Support 'develop' command
+   * OpenAlea GForge upload
+
+It doesn't include any GUI interface (See [[packages:compilation_installation:deploygui:deploygui|OpenAlea.DeployGui]] for that).
+
+Requirements
+-------------
+
+  * Python_ <= 2.7
+  * Setuptools_
+
+Download
+---------
+
+See the [[:download|Download page]].
+
+Installation
+-------------
+
+  python setup.py install
+
+.. note::
+
+  OpenAlea.Deploy can be automatically installed with the *alea_setup.py* script.
+
+
+.. _Setuptools: http://pythonhosted.org/setuptools
+.. _Python: http://www.python.org
+
+
+Developper Documentation
+-------------------------
+
+To distribute your package with OpenAlea.Deploy, you need to write a setup.py script
+as you do with setuptools.
+
+  * have a look to the Setuptools_ developer's guide.
+  * OpenAlea.Deploy add a numerous of keywords and commands
+
+Setup keywords
+###############
+
+  * create_namespace = [True|False] : if **True** create the namespaces in *namespace_packages*
+  * scons_scripts = [list of Scons scripts] : if not empty, call scons to build extensions
+  * scons_parameters = [list of Scons parameters] : such as ``build_prefix=...``
+  * postinstall_scripts = [list of strings] : Each string corresponds to a python module to execute at installation time. The module may contain a install function ``def install():``.
+  * inc_dirs = {dict of dest_dir:src_dir} : Dictionary to map the directory containing the header files.
+  * lib_dirs = {dict of dest_dir:src_dir} : Dictionary to map the directory containing the dynamic libraries to share.
+  * share_dirs = {dict of dest_dir:src_dir} : Dictionary to map the directory containing shared data.
+
+Additional setup.py commands
+#############################
+
+   * *create_namespace* : create_namespace declared in *namespace_packages*, usage : ``python setup.py create_namespace``.
+   * *scons* : call scons scripts, usage : ``python setup.py scons``.
+   * *alea_install* : wrap easy_install command, usage : ``python setup.py alea_install``.
+   * *alea_upload* : upload distribution forge on the openalea gforge
+
+For more information see : ``python setup.py --help-commands``
+
+Setup.py example
+#################
+
+::
+
+    import sys
+    import os
+    from setuptools import setup, find_packages
+    from os.path import join as pj
+
+    build_prefix = "build-scons"
+
+    # Setup function
+    setup(
+        name = "OpenAlea.FakePackage",
+        version = "0.1",
+        author = "Me",
+        author_email = "me@example.com",
+        description = "This is an Example Package",
+        license = 'GPL',
+        keywords = 'fake',
+        url = 'http://myurl.com',
+
+        # Scons
+        scons_scripts = ["SConstruct"],
+        scons_parameters = ["build_prefix=%s"%(build_prefix)],
+
+        # Packages
+        namespace_packages = ["openalea"],
+        create_namespaces = True,
+        packages = ['openalea.fakepackage', ],
+
+        package_dir = {
+                    'openalea.fakepackage':  pj('src','fakepackage'),
+                    '' : 'src',  # necessary to use develop command
+                      },
+        include_package_data = True,
+        zip_safe= False,
+
+        # Specific options of openalea.deploy
+        lib_dirs = { 'lib' : pj(build_prefix, 'lib'), },
+        inc_dirs = { 'include' : pj(build_prefix, 'include') },
+        share_dirs = { 'share' : 'share' },
+        postinstall_scripts = ['openalea.fakepackage.postinstall',],
+
+        # Scripts
+        entry_points = { 'console_scripts': [
+                               'fake_script = openalea.fakepackage.amodule:console_script', ],
+                         'gui_scripts': [
+                               'fake_gui = openalea.fakepackage.amodule:gui_script',]},
+
+        # Dependencies
+        setup_requires = ['openalea.deploy'],
+        dependency_links = ['http://openalea.gforge.inria.fr/pi'],
+        #install_requires = [],
+
+    )
+
+
+
+
+
+
+
+
+OpenAlea.Deploy 2.0.0
+---------------------
+
+- add VirtualEnv and Conda compatibility and detection
+
+OpenAlea.Deploy 0.9.0
+---------------------
+
+- add bdist_rpm  options
+
+OpenAlea.Deploy 0.8.0
+---------------------
+
+**Revision 2194**
+
+- add add_plat_name option in setuptools
+- Add Sphinx documentation in ./doc and update the setup.cfg accordingly
+
+OpenAlea.Deploy 0.7.0
+---------------------
+
+**Revision xxxx**
+
+- add pylint option in setuptools
+- add sphinx_upload option in setuptools
+- add DYLD_LIBRARY_PATH to deploy config file
+- update documentation
+	- Fixes docstrings to make them compatible with sphinx, or have a nicer output
+	- fixes indentation issues in binary_deps and gforge_utils
+	- fixes coding conventions
+	- a few typos
+	- remove some warnings
+	- Fixed bad indentation
+
+OpenAlea.Deploy 0.6.2
+---------------------
+
+**Revision 1575**
+
+- add clean command to incorporate scons into setup.py
+- Port to Mac
+- Fix documentation (docstrings) to remove warnings in epydoc:
+	http://openalea.gforge.inria.fr/doc/deploy-0.6.0/
+- Fix tests
+- Upgrade setuptools to 0.6c9
+- Fix PATH problem on Windows to take into account OpenAlea libraries.
+- Version are now compared with pkg_resources
+
+OpenAlea.Deploy 0.4.12
+----------------------
+- Fix PATH problem on Windows to take into account OpenAlea libraries.
+
+OpenAlea.Deploy 0.4.11
+----------------------
+- Fix version comparison by using parse_version rather than lexical cmp.
+
+OpenAlea.Deploy 0.4.9
+---------------------
+- add binary dependency declaration in binray_deps.py
+
+OpenAlea.Deploy 0.4.8
+---------------------
+- Fix upload for big files
+
+OpenAlea.Deploy 0.4.7
+---------------------
+- Add remove_package and remove_release in gforge.py
+
+OpenAlea.Deploy 0.4.6
+---------------------
+- Add get_metainfo function
+
+OpenAlea.Deploy 0.4.5
+---------------------
+- Fix alea_clean Bug (remove all site-package)
+
+OpenAlea.Deploy 0.4.4
+---------------------
+- Fix bug with os.environ['PATH'] under windows
+
+OpenAlea.Deploy 0.4.3
+---------------------
+- Fix bug with namespace creation and complex __init__.py
+
+OpenAlea.Deploy 0.4.2
+---------------------
+- Add <alea_upload> command (GForge upload)
+- Add gforge module (SOAP communication)
+- Fix dyn-lib bug with virtual env and with relative path
+- Add option to alea_config to print dyn-lib
+
+OpenAlea.Deploy 0.4.1
+---------------------
+- Fix bug with <develop> command and namespaces
+
+OpenAlea.Deploy 0.4.0
+---------------------
+- Improve <develop> command : manage namespace and environment variables
+- Reinstall shared libraries if they are missing (but not egm)
+- Add shell command : alea_clean, alea_config and alea_update
+- Based on setuptools-0.6c8
+
+OpenAlea.Deploy 0.3.8
+---------------------
+- Adapt develop command for lib_dir and bin_dir
+
+OpenAlea.Deploy 0.3.7
+---------------------
+- Simplify the warning message for environment variable on Linux
+
+OpenAlea.Deploy 0.3.6
+---------------------
+- add get_recommended_pkg functions
+
+OpenAlea.Deploy 0.3.5
+---------------------
+- add alea_clean and alea_update_all scripts
+
+OpenAlea.Deploy 0.3.4a
+----------------------
+- Fix platform detection for darwin
+
+OpenAlea.Deploy 0.3.3
+---------------------
+- Execute build_ext before build_py
+
+OpenAlea.Deploy 0.3.2
+---------------------
+- Manage a list of web repository
+
+OpenAlea.Deploy 0.3
+-------------------
+- Manage a directory of shared lib
+
+
+