debian/changelog

+python-pysam (0.15.3+ds-5) unstable; urgency=medium
+
+  [ Chris Lamb ]
+  * make the build reproducible
+    Closes: #948280
+
+  [ Andreas Tille ]
+  * Standards-Version: 4.4.1
+  * debian/copyright: use spaces rather than tabs to start continuation
+    lines.
+  * Set upstream metadata fields: Bug-Database, Repository, Repository-
+    Browse.
+
+ -- Andreas Tille <tille@debian.org>  Mon, 06 Jan 2020 17:44:23 +0100
+
 python-pysam (0.15.3+ds-4) unstable; urgency=medium
 
   * Team upload.

debian/control

@@ -21,7 +21,7 @@ Build-Depends: debhelper-compat (= 12),
                bcftools (>= 1.9) <!nocheck>,
                python-pytest <!nocheck>,
                python3-pytest <!nocheck>
-Standards-Version: 4.4.0
+Standards-Version: 4.4.1
 Vcs-Browser: https://salsa.debian.org/med-team/python-pysam
 Vcs-Git: https://salsa.debian.org/med-team/python-pysam.git
 Homepage: https://pysam.readthedocs.org/en/latest

debian/rules

@@ -54,10 +54,10 @@ pysam_data.%:
 clean-tests: pysam_data.clean cbcf_data.clean
 	find . -name "*.pyc" -delete
 	find . -name "*.pyxbldc" -delete
-	#find . -name "tmp_*" -delete # This deletes samtools/tmp_file.* which is needed to build successfully
+	find . -name "tmp_*.bam" -delete
 	find . -name "*.bai*" -delete
 	find . -name "*.cram*" -delete
-	#find . -name "*.bam" -delete # which deletes files tested
+	find . -name "pysam_uncompressed.bam" -delete
 	rm -rf	tests/pysam_test_work \
 		tests/example_htslib.gtf.gz.tbi \
 		tests/log.txt \

debian/upstream/metadata

@@ -7,4 +7,6 @@ Registry:
   Entry: pysam
 - Name: conda:bioconda
   Entry: pysam
-Repository: https://github.com/pysam-developers/pysam
+Repository: https://github.com/pysam-developers/pysam.git
+Bug-Database: https://github.com/pysam-developers/pysam/issues
+Repository-Browse: https://github.com/pysam-developers/pysam