debian/control

@@ -7,41 +7,30 @@ Testsuite: autopkgtest-pkg-python
 Priority: optional
 Build-Depends: debhelper (>= 12~),
                dh-python,
-               python-all,
-               python-docutils,
-               python-setuptools,
-               python-six (>= 1.9.0),
-               python-yaml,
                python3-all,
                python3-docutils,
                python3-setuptools,
                python3-six (>= 1.9.0),
-               python3-yaml
+               python3-yaml,
+               python3-markupsafe,
+               python3-packaging,
+               python3-boltons,
+               python3-unittest2,
+               python3-nose,
+               python3-sphinx,
+               python3-recommonmark,
+               python3-sphinx-rtd-theme
 Standards-Version: 4.3.0
 Vcs-Browser: https://salsa.debian.org/med-team/galaxy-lib
 Vcs-Git: https://salsa.debian.org/med-team/galaxy-lib.git
 Homepage: https://github.com/galaxyproject/galaxy-lib
 
-Package: python-galaxy-lib
-Architecture: all
-Depends: ${misc:Depends},
-         ${python:Depends}
-Recommends: ${python:Recommends}
-Suggests: ${python:Suggests}
-Description: Subset of Galaxy workflow platform's core code base - Python 2.X
- A small subset of the Galaxy project for reuse outside the core.
- The Galaxy software framework enables researchers without informatics
- expertise to perform computational analyses through the web. A user interacts
- with Galaxy through the web by uploading and analyzing the data. Galaxy
- interacts with underlying computational infrastructure (servers that run the
- analyses and disks that store the data) without exposing it to the user.
- .
- This is the Python 2.x version.
-
 Package: python3-galaxy-lib
 Architecture: all
 Depends: ${misc:Depends},
-         ${python3:Depends}
+         ${python3:Depends},
+         ${sphinxdoc:Depends}
+Built-Using: ${sphinxdoc:Built-Using}
 Recommends: ${python3:Recommends}
 Suggests: ${python3:Suggests}
 Description: Subset of Galaxy core code base designed to be used

debian/doc-base

+Document: galaxy-lib
+Title: Galaxy-Lib Documentation
+Author: Galaxy Project and Community
+Abstract: A small subset of the Galaxy project for reuse outside the core. This
+ subset has minimal dependencies and should be Python 3 compatible.
+Section: Programming/Python
+
+Format: html
+Index: /usr/share/doc/python3-galaxy-lib/html/index.html
+Files: /usr/share/doc/python3-galaxy-lib/html/*
+

debian/python3-galaxy-lib.docs → debian/docs

 README.rst
+build/html

debian/patches/remove_badges

+Author: Michael R. Crusoe <michael.crusoe@gmail.com>
+Description: Respect user privacy and don't include remote images
+Forwarded: not applicable
+--- galaxy-lib.orig/README.rst
++++ galaxy-lib/README.rst
+@@ -1,14 +1,3 @@
+-
+-.. image:: https://readthedocs.org/projects/galaxy-lib/badge/?version=latest
+-   :target: http://galaxy-lib.readthedocs.io/en/latest/?badge=latest
+-   :alt: Documentation Status
+-
+-.. image:: https://badge.fury.io/py/galaxy-lib.svg
+-   :target: https://pypi.python.org/pypi/galaxy-lib/
+-
+-.. image:: https://travis-ci.org/galaxyproject/galaxy-lib.png?branch=master
+-   :target: https://travis-ci.org/galaxyproject/galaxy-lib
+-
+ Overview
+ --------
+ 

debian/patches/repro

+From: Michael R. Crusoe <michael.crusoe@gmail.com>
+Subject: keep environment variables out of generated docs
+--- galaxy-lib.orig/galaxy/tools/verify/test_data.py
++++ galaxy-lib/galaxy/tools/verify/test_data.py
+@@ -28,7 +28,9 @@
+ 
+ class TestDataResolver(object):
+ 
+-    def __init__(self, file_dirs=None, env_var='GALAXY_TEST_FILE_DIR', environ=os.environ):
++    def __init__(self, file_dirs=None, env_var='GALAXY_TEST_FILE_DIR', environ=None):
++        if environ is None:
++            environ = os.environ
+         if file_dirs is None:
+             file_dirs = environ.get(env_var, None)
+         if file_dirs is None:
+--- galaxy-lib.orig/galaxy/util/__init__.py
++++ galaxy-lib/galaxy/util/__init__.py
+@@ -1527,7 +1527,7 @@
+     return os.path.abspath(galaxy_root_path)
+ 
+ 
+-def config_directories_from_setting(directories_setting, galaxy_root=galaxy_root_path):
++def config_directories_from_setting(directories_setting, galaxy_root=None):
+     """
+     Parse the ``directories_setting`` into a list of relative or absolute
+     filesystem paths that will be searched to discover plugins.
+@@ -1541,6 +1541,8 @@
+     :rtype:                 list of strings
+     :returns:               list of filesystem paths
+     """
++    if galaxy_root is None:
++        galaxy_root = galaxy_root_path
+     directories = []
+     if not directories_setting:
+         return directories

debian/patches/series

+repro
+remove_badges

debian/rules

 #! /usr/bin/make -f
 
 export PYBUILD_NAME=galaxy-lib
-export PYBUILD_DISABLE=test
 export PYBUILD_AFTER_INSTALL_python2=rm -rf {destdir}/usr/bin/
 %:
-	dh $@ --with python2,python3 --buildsystem=pybuild
+	dh $@ --with python3,sphinxdoc --buildsystem=pybuild
+
+override_dh_auto_build:
+	dh_auto_build
+	PYTHONPATH=. http_proxy='http://127.0.0.1:9/' python3 -m sphinx -N -E -bhtml docs build/html
+
+override_dh_auto_install:
+	dh_auto_install
+	rm -Rf debian/python3-galaxy-lib/usr/bin  # remove later if users request them