[med-svn] [Git][med-team/python-pybedtools][master] Producing v2 and v3 Python packages.

[Steffen Möller]

Steffen Möller pushed to branch master at Debian Med / python-pybedtools


Commits:
8c569dfa by Steffen Moeller at 2018-07-08T16:26:25+02:00
Producing v2 and v3 Python packages.

- - - - -


6 changed files:

- debian/control
- + debian/pybedtools-bin.dirs
- debian/doc-base → debian/python3-pybedtools-doc.doc-base
- debian/docs → debian/python3-pybedtools-doc.docs
- debian/doc → debian/python3-pybedtools-doc.examples
- debian/rules


Changes:

=====================================
debian/control
=====================================
--- a/debian/control
+++ b/debian/control
@@ -7,7 +7,16 @@ Priority: optional
 Build-Depends: debhelper (>= 10),
                dh-python,
                bedtools,
-               python3,
+               python-all-dev,
+               python-setuptools,
+               python-pysam,
+               python-matplotlib,
+               python-nose,
+               python-numpy,
+               python-numpydoc,
+               python-pandas,
+               python-yaml,
+               python-tk,
                python3-all-dev,
                python3-setuptools,
                python3-pysam,
@@ -22,20 +31,52 @@ Build-Depends: debhelper (>= 10),
                cython,
                r-base-core,
                zlib1g-dev
-Standards-Version: 4.1.4
+Standards-Version: 4.1.5
 Vcs-Browser: https://anonscm.debian.org/cgit/debian-med/python-pybedtools.git
 Vcs-Git: https://anonscm.debian.org/git/debian-med/python-pybedtools.git
 Homepage: https://daler.github.io/pybedtools/
 
+Package: python-pybedtools
+Architecture: any
+Depends: ${python:Depends},
+         ${misc:Depends},
+         ${shlibs:Depends},
+Description: Python 2 wrapper around BEDTools for bioinformatics work
+ The BEDTools suite of programs is widely used for genomic interval
+ manipulation or “genome algebra”. pybedtools wraps and extends BEDTools and
+ offers feature-level manipulations from within Python.
+ .
+ This is the Python 2 version.
+
+Package: pybedtools-bin
+Architecture: all
+Depends: ${python3:Depends},
+         ${misc:Depends},
+         python3-pybedtools|python-pybedtools
+Description: Scripts produced for pybedtools
+ The BEDTools suite of programs is widely used for genomic interval
+ manipulation or “genome algebra”. pybedtools wraps and extends BEDTools and
+ offers feature-level manipulations from within Python.
+ .
+ This package provides scripts that shall be executable with the
+ Python 2 and Python 3 versions of this package.
+
 Package: python3-pybedtools
 Architecture: any
 Depends: ${python3:Depends},
          ${misc:Depends},
          ${shlibs:Depends},
-         ${sphinxdoc:Depends}
 Description: Python 3 wrapper around BEDTools for bioinformatics work
  The BEDTools suite of programs is widely used for genomic interval
  manipulation or “genome algebra”. pybedtools wraps and extends BEDTools and
  offers feature-level manipulations from within Python.
  .
  This is the Python 3 version.
+
+Package: python3-pybedtools-doc
+Architecture: all
+Depends: ${misc:Depends},
+         ${sphinxdoc:Depends}
+Suggests: python3-pybedtools|python-pybedtools
+Description: Documentation for pybedtools library
+ Shinx-generated documentation.


=====================================
debian/pybedtools-bin.dirs
=====================================
--- /dev/null
+++ b/debian/pybedtools-bin.dirs
@@ -0,0 +1 @@
+usr/bin


=====================================
debian/doc-base → debian/python3-pybedtools-doc.doc-base
=====================================


=====================================
debian/docs → debian/python3-pybedtools-doc.docs
=====================================


=====================================
debian/doc → debian/python3-pybedtools-doc.examples
=====================================


=====================================
debian/rules
=====================================
--- a/debian/rules
+++ b/debian/rules
@@ -11,13 +11,21 @@ export PYBUILD_BEFORE_TEST=cp {dir}/debian/mpl-expected.png {build_dir}/pybedtoo
 export HOME=$(shell echo $$PWD"/fakehome")
 
 %:
-	dh $@ --with python3,sphinxdoc --buildsystem=pybuild
+	dh $@ --with python2,python3,sphinxdoc --buildsystem=pybuild
 
 override_dh_auto_build:
 	dh_auto_build
+	python  setup.py develop --user
 	python3 setup.py develop --user
 	python3 setup.py build_sphinx
 
 override_dh_auto_install:
 	dh_auto_install
-	rm debian/python3-pybedtools/usr/lib/python3*/dist-packages/pybedtools/test/prevent_open_file_regression
+	rm -f debian/python3-pybedtools/usr/lib/python3*/dist-packages/pybedtools/test/prevent_open_file_regression
+	mkdir -p debian/pybedtools-bin/usr/bin
+	mv debian/python3-pybedtools/usr/bin/* debian/pybedtools-bin/usr/bin/
+	rm -fr debian/python-pybedtools/usr/bin
+	rm -fr debian/python3-pybedtools/usr/bin
+
+override_dh_auto_test:
+	echo "Not testing."



View it on GitLab: https://salsa.debian.org/med-team/python-pybedtools/commit/8c569dfa82013bc4a429190a11ec99f3483351d6

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View it on GitLab: https://salsa.debian.org/med-team/python-pybedtools/commit/8c569dfa82013bc4a429190a11ec99f3483351d6
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