Update upstream source from tag 'upstream/0.22.1+ds'

Update to upstream version '0.22.1+ds'
with Debian dir 2ee2db91e5d45c01ef09c42c6e401fa04adb59ca

New upstream version 0.22.1+ds

Create new changelog entry

Upload to unstable

Fix clean target

Close bug

Drop patch accepted upstream

routine-update: Build-Depends: s/dh-python/dh-sequence-python3/

Update upstream source from tag 'upstream/0.22.0+ds'

Update to upstream version '0.22.0+ds'
with Debian dir 36d5c28baf2be2d1426cabd3e9cd67d92768a431

New upstream version 0.22.0+ds

routine-update: New upstream version

ready to upload to unstable.

typos.patch: add; fix typos caught by lintian.

d/rules: delete extra license files.

d/copyright: bump copyright year.

remove todo item.

d/changelog: fix version in TODO item.

update changelog (with TODO item)

clean_less patch: forwarding not-needed

skip-test-on-32-bit.patch: provide dep3 header

skip_test_remote.patch: forwarding not-needed

python3.11.patch removed

The patch is applied upstream.

disable-tests-python3.11.patch removed

The patch has been applied upstream.

Update upstream source from tag 'upstream/0.21.0+ds'

Update to upstream version '0.21.0+ds'
with Debian dir 326ee67c670e3e34d69697644bdaf07727690840

New upstream version 0.21.0+ds

routine-update: New upstream version

Upload to unstable

Add patch to fix proper so ext

routine-update: Ready to upload to unstable

routine-update: Standards-Version: 4.6.2

update changelog

d/control: restore autodep8-python autopkgtest.

d/control: restore dependency on python3-all-dev.

disable-tests-python3.11.patch: add; work around test failure.

Thanks: John Marshall and Graham Inggs
Closes: #1024425

ready to upload to unstable.

d/control: disable autopkgtest-pkg-python.

This only disables the superficial test which raises the missing
python3.11 support.  Classical autopkgtest is still there.

unrelease: autopkgtest needs adjustment.

ready to upload to unstable.

d/control: make build only depend on python3-dev.

Currently python3.11 support is missing, this is a temporary measure
to make sure the package can be shipped for bookworm.

test-truncated-bam.patch: delete; applied upstream.

skip_test_remote.patch: refresh.

Update lintian override info format in d/python-pysam.lintian-overrides on line 4.

Changes-By: lintian-brush
Fixes: lintian: mismatched-override
See-also: https://lintian.debian.org/tags/mismatched-override.html

Update upstream source from tag 'upstream/0.20.0+ds'

Update to upstream version '0.20.0+ds'
with Debian dir 2c2bff2e77fc8502275a657cbd46232dcf7c1767

New upstream version 0.20.0+ds

routine-update: New upstream version

ready to upload to unstable.

d/*.lintian-overrides: remove unused overrides.

d/control: add myself to uploaders.

d/*.lintian-overrides: refresh mismatches.

test-truncated-bam.patch: added; fix test truncated BAM failure.

Thanks: John Marshall

Remove unused license definitions for LGPL-2.1+, BSD-3-clause.

Changes-By: lintian-brush
Fixes: lintian: unused-license-paragraph-in-dep5-copyright
See-also: https://lintian.debian.org/tags/unused-license-paragraph-in-dep5-copyright.html

routine-update: Standards-Version: 4.6.1

Update upstream source from tag 'upstream/0.19.1+ds'

Update to upstream version '0.19.1+ds'
with Debian dir 8d6067cf8e6433e7474d1bfcaaa7dc7205ee6434

New upstream version 0.19.1+ds

routine-update: New upstream version

Upload to experimental

Bump Build-Depends: libhts-dev (>= 1.14~)

Remove superflous file patterns from debian/copyright

Upload to experimental

Update upstream source from tag 'upstream/0.18.0+ds'

Update to upstream version '0.18.0+ds'
with Debian dir fbe513c606d10f93e294607f45f5cce098219fe3

New upstream version 0.18.0+ds

Remove also win32 dir from upstream code (and when beeing at it also .github and .gitignore)

Drop outdated and unused tests

Remove constraints unnecessary since buster

* Build-Depends: Drop versioned constraint on bcftools, libhts-dev and samtools.

Changes-By: deb-scrub-obsolete

Avoid explicitly specifying -Wl,--as-needed linker flag.

Changes-By: lintian-brush
Fixes: lintian: debian-rules-uses-as-needed-linker-flag
See-also: https://lintian.debian.org/tags/debian-rules-uses-as-needed-linker-flag.html

Update renamed lintian tag names in lintian overrides.

Changes-By: lintian-brush
Fixes: lintian: renamed-tag
See-also: https://lintian.debian.org/tags/renamed-tag.html

routine-update: No tab in license text

Update upstream source from tag 'upstream/0.18.0+ds'

Update to upstream version '0.18.0+ds'
with Debian dir 56361846805f33ba070134821867efdb2fd1768a

New upstream version 0.18.0+ds

routine-update: New upstream version

Upload to unstable

Attempt skipping failing test on 32-bit

Upload to experimental

Interim changelog entry

Rediff patches

Bump watch file version to 4

Standards version: 4.6.0

Update upstream source from tag 'upstream/0.17.0+ds'

Update to upstream version '0.17.0+ds'
with Debian dir e8cdf682c37aedf7f1618ff50f6680765468f2f5

New upstream version 0.17.0+ds

Exclude another test that is failing

Do not ignore test results via '|| true'

Update copyright

Adapt patches to new upstream version.  Patches targeting at version 1.10 were deactivated

routine-update: debhelper-compat 13

Update upstream source from tag 'upstream/0.16.0.1+ds'

Update to upstream version '0.16.0.1+ds'
with Debian dir fd4ab3584641ae7025d3b069d5d1b44aa885e82b

New upstream version 0.16.0.1+ds

routine-update: New upstream version

DEP3

Upload to unstable

Remove Python2 also from d/rules

Set upstream metadata fields: Bug-Submit.

Fixes: lintian: upstream-metadata-missing-bug-tracking
See-also: https://lintian.debian.org/tags/upstream-metadata-missing-bug-tracking.html

routine-update: Rules-Requires-Root: no

routine-update: Add salsa-ci file

routine-update: Standards-Version: 4.5.0

Remove unneeded debian/gbp.conf

Remove Python2 package

releasing package python-pysam version 0.15.4+ds-2

Dont run unittests for python2 binary, to reduce pytest rdeps

0.15.4+ds-1

Try to keep example_no_seq_in_header_null_bytes.bam from being deleted