debian/control

@@ -3,7 +3,16 @@ Section: science
 Priority: optional
 Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
 Uploaders: Liubov Chuprikova <chuprikovalv@gmail.com>
-Build-Depends: debhelper (>= 12~)
+Build-Depends: debhelper (>= 12~),
+               dh-python,
+               python3,
+               python3-setuptools,
+               python3-pytest-cov,
+               python3-skbio,
+               ncbi-blast+,
+               vsearch,
+               qiime,
+               q2-types
 Standards-Version: 4.3.0
 Vcs-Browser: https://salsa.debian.org/med-team/q2-feature-classifier
 Vcs-Git: https://salsa.debian.org/med-team/q2-feature-classifier.git
@@ -12,7 +21,15 @@ Homepage: https://qiime2.org/
 Package: q2-feature-classifier
 Architecture: all
 Depends: ${shlibs:Depends},
-         ${misc:Depends}
+         ${misc:Depends},
+         ${python3:Depends},
+         python3-sklearn,
+         python3-skbio,
+         python3-biom-format,
+         ncbi-blast+,
+         vsearch,
+         qiime,
+         q2-types
 Description: QIIME 2 plugin supporting taxonomic classification
  QIIME 2 is a powerful, extensible, and decentralized microbiome analysis
  package with a focus on data and analysis transparency. QIIME 2 enables

debian/rules

@@ -3,29 +3,18 @@
 # DH_VERBOSE := 1
 export LC_ALL=C.UTF-8
 
-include /usr/share/dpkg/default.mk
-# this provides:
-# DEB_SOURCE: the source package name
-# DEB_VERSION: the full version of the package (epoch + upstream vers. + revision)
-# DEB_VERSION_EPOCH_UPSTREAM: the package's version without the Debian revision
-# DEB_VERSION_UPSTREAM_REVISION: the package's version without the Debian epoch
-# DEB_VERSION_UPSTREAM: the package's upstream version
-# DEB_DISTRIBUTION: the distribution(s) listed in the current entry of debian/changelog
-# SOURCE_DATE_EPOCH: the source release date as seconds since the epoch, as
-#                    specified by <https://reproducible-builds.org/specs/source-date-epoch/>
-
-# for hardening you might like to uncomment this:
-# export DEB_BUILD_MAINT_OPTIONS=hardening=+all
+# For testing, we need .egg-info so the entry points are available.
+export PYBUILD_BEFORE_TEST=python{version} setup.py develop --install-dir {build_dir}
+# Delete .egg-info and other files that were generated along with .egg-info
+export PYBUILD_BEFORE_INSTALL=rm -rvf {build_dir}/q2-feature-classifier.egg-* \
+	{build_dir}/site.py {build_dir}/.coverage* {build_dir}/easy-install.pth
 
 %:
-	dh $@
+	dh $@ --with python3 --buildsystem=pybuild
 
-### When overriding auto_test make sure DEB_BUILD_OPTIONS will be respected
-#override_dh_auto_test:
-#ifeq (,$(filter nocheck,$(DEB_BUILD_OPTIONS)))
-#	do_stuff_for_testing
-#endif
+override_dh_auto_test:
+	dh_auto_test -- -s custom --test-args="cd {build_dir}; py.test-3 --cov=q2_feature_classifier"
 
-### If you **really** can not use uscan (even not with mode=git) use a debian/get-orig-script
-#get-orig-source:
-#	. debian/get-orig-source
+override_dh_fixperms:
+	dh_fixperms
+	chmod 644 $(CURDIR)/debian/q2-feature-classifier/usr/lib/python3/dist-packages/q2_feature_classifier/tests/data/*