[med-svn] [Git][med-team/pyranges][master] 3 commits: Add missing sources for removed bam files

[Nilesh Patra]

Nilesh Patra pushed to branch master at Debian Med / pyranges


Commits:
cef289a7 by Nilesh Patra at 2020-06-21T11:23:54+00:00
Add missing sources for removed bam files

- - - - -
24886126 by Nilesh Patra at 2020-06-21T11:24:24+00:00
Generate files during build

- - - - -
0d655bf2 by Nilesh Patra at 2020-06-21T11:25:35+00:00
Add myself to uploaders

- - - - -


5 changed files:

- debian/changelog
- debian/control
- + debian/missing-sources/control.sam
- + debian/missing-sources/test_sorted.sam
- debian/rules


Changes:

=====================================
debian/changelog
=====================================
@@ -1,4 +1,4 @@
-pyranges (0.0.58-1) UNRELEASED; urgency=medium
+pyranges (0.0.79+ds-1) UNRELEASED; urgency=medium
 
   * Initial release (Closes: #963015)
 


=====================================
debian/control
=====================================
@@ -2,7 +2,7 @@ Source: pyranges
 Section: python
 Priority: optional
 Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
-Uploaders: Steffen Moeller <moeller at debian.org>
+Uploaders: Steffen Moeller <moeller at debian.org>, Nilesh Patra <npatra974 at gmail.com>
 Build-Depends: debhelper-compat (= 13),
                dh-python,
                python3-setuptools,
@@ -12,7 +12,8 @@ Build-Depends: debhelper-compat (= 13),
                python3-pytest <!nocheck>,
                python3-sorted-nearest,
                python3-hypothesis,
-               bedtools
+               bedtools,
+               samtools
 Standards-Version: 4.5.0
 Homepage: https://github.com/biocore-ntnu/pyranges
 Vcs-Browser: https://salsa.debian.org/med-team/pyranges


=====================================
debian/missing-sources/control.sam
=====================================
The diff for this file was not included because it is too large.

=====================================
debian/missing-sources/test_sorted.sam
=====================================
The diff for this file was not included because it is too large.

=====================================
debian/rules
=====================================
@@ -13,15 +13,11 @@ export PYBUILD_BEFORE_TEST=cp -av {dir}/tests/*.bed {build_dir}/tests && \
 %:
 	dh $@ --with python3 --buildsystem=pybuild
 
-
-# If you need to rebuild the Sphinx documentation
-# Add spinxdoc to the dh --with line
-#
-# And uncomment the following lines
-#override_dh_auto_build: export http_proxy=127.0.0.1:9
-#override_dh_auto_build: export https_proxy=127.0.0.1:9
-#override_dh_auto_build:
-#	dh_auto_build
-#	PYTHONPATH=. python3 -m sphinx -N -bhtml docs/ build/html # HTML generator
-#	PYTHONPATH=. python3 -m sphinx -N -bman docs/ build/man # Manpage generator
+override_dh_auto_build:
+	dh_auto_build
+	echo 'Generating corresponding files ...'
+	cat debian/missing-sources/test_sorted.sam| samtools view -Sb - > tests/test_data/test_sorted.bam
+	cat debian/missing-sources/control.sam| samtools view -Sb - > pyranges/example_data/control.bam
+	samtools index tests/test_data/test_sorted.bam tests/test_data/test_sorted.bam.bai
+	samtools index pyranges/example_data/control.bam pyranges/example_data/control.bam.bai
 



View it on GitLab: https://salsa.debian.org/med-team/pyranges/-/compare/3deb6282fb86ff18bb160044afadf52cda1c1680...0d655bf2ff0bed70dea13e13e4fd5c258ca3793a

-- 
View it on GitLab: https://salsa.debian.org/med-team/pyranges/-/compare/3deb6282fb86ff18bb160044afadf52cda1c1680...0d655bf2ff0bed70dea13e13e4fd5c258ca3793a
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