[med-svn] [Git][med-team/tombo][master] Add (Build-)Depends until mappy is really needed

[Andreas Tille]

Andreas Tille pushed to branch master at Debian Med / tombo


Commits:
16028678 by Andreas Tille at 2020-06-15T22:39:56+02:00
Add (Build-)Depends until mappy is really needed

- - - - -


5 changed files:

- debian/changelog
- debian/control
- + debian/patches/no_future.patch
- + debian/patches/series
- debian/rules


Changes:

=====================================
debian/changelog
=====================================
@@ -1,5 +1,7 @@
 tombo (1.5.1-1) UNRELEASED; urgency=medium
 
   * Initial release (Closes: #<bug>)
+  TODO: python3-mappy (from minimap2)
+        blocked by https://salsa.debian.org/med-team/ksw2
 
  -- Andreas Tille <tille at debian.org>  Mon, 15 Jun 2020 11:13:59 +0200


=====================================
debian/control
=====================================
@@ -3,7 +3,13 @@ Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.
 Uploaders: Andreas Tille <tille at debian.org>
 Section: science
 Priority: optional
-Build-Depends: debhelper-compat (= 13)
+Build-Depends: debhelper-compat (= 13),
+               dh-python,
+               python3-all-dev,
+               python3-setuptools,
+               cython3,
+               python3-numpy,
+               python3-tqdm
 Standards-Version: 4.5.0
 Vcs-Browser: https://salsa.debian.org/med-team/tombo
 Vcs-Git: https://salsa.debian.org/med-team/tombo.git
@@ -12,7 +18,13 @@ Homepage: https://github.com/nanoporetech/tombo
 Package: tombo
 Architecture: any
 Depends: ${shlibs:Depends},
-         ${misc:Depends}
+         ${misc:Depends},
+         ${python3:Depends},
+         python3-h5py,
+         python3-numpy,
+         python3-scipy,
+         python3-mappy,
+         python3-tqdm
 Description: identification of modified nucleotides from raw nanopore sequencing data
  Tombo is a suite of tools primarily for the identification of modified
  nucleotides from nanopore sequencing data. Tombo also provides tools for


=====================================
debian/patches/no_future.patch
=====================================
@@ -0,0 +1,16 @@
+--- a/setup.py
++++ b/setup.py
+@@ -1,4 +1,3 @@
+-from __future__ import unicode_literals
+ 
+ import os
+ import sys
+@@ -58,7 +57,7 @@ setup(
+     version = __version__,
+     packages = ["tombo"],
+     install_requires = ['h5py', 'numpy', 'scipy', 'cython',
+-                        'setuptools >= 18.0', 'mappy >= 2.10', 'future', 'tqdm'],
++                        'setuptools >= 18.0', 'mappy >= 2.10', 'tqdm'],
+     extras_require={'full':extras_require},
+ 
+     author = "Marcus Stoiber",


=====================================
debian/patches/series
=====================================
@@ -0,0 +1 @@
+no_future.patch


=====================================
debian/rules
=====================================
@@ -18,14 +18,10 @@ include /usr/share/dpkg/default.mk
 # export DEB_BUILD_MAINT_OPTIONS=hardening=+all
 
 %:
-	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
-
-### 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



View it on GitLab: https://salsa.debian.org/med-team/tombo/-/commit/160286781eb4373ae63afcf7b9a84a89c9700a4f

-- 
View it on GitLab: https://salsa.debian.org/med-team/tombo/-/commit/160286781eb4373ae63afcf7b9a84a89c9700a4f
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