picard-tools (3.1.1+dfsg-1) unstable; urgency=medium

  * New upstream version 3.1.1+dfsg
  * Refreshing patches
  * Enabling the test with BarclayParser again
  * Patching out more code portions using google-nio

 -- Pierre Gruet <pgt@debian.org>  Sat, 16 Dec 2023 22:38:31 +0100

picard-tools (3.0.0+dfsg-1) unstable; urgency=medium

  * New upstream version 3.0.0+dfsg
  * Refreshing patches
  * Raising Standards version to 4.6.2 (no change)
  * Removing unnecessary versioned B-D
  * Adding nashorn to d/maven.ignoreRules
  * Running the build-time tests from a directory with no '+' in its path
  * Omitting the long-failing jar invocation in the tests

 -- Pierre Gruet <pgt@debian.org>  Tue, 04 Jul 2023 15:23:35 +0200

picard-tools (2.27.5+dfsg-2) unstable; urgency=medium

  * Stopping exporting ANT_HOME and JAVA_HOME in d/rules, this caused FTBFS
    on buildds since OpenJDK17 became the default JDK

 -- Pierre Gruet <pgt@debian.org>  Sun, 06 Nov 2022 17:21:06 +0100

picard-tools (2.27.5+dfsg-1) unstable; urgency=medium

  * New upstream version 2.27.5+dfsg
  * Refreshing patches
  * Adding a versioned B-D on libhtsjdk-java because of a change in its ABI
  * Building against openjdk-17 (Closes: #1011156):
    - Skipping tests which cannot run because of old Gradle not providing
      --add-opens
    - Stopping shipping BamToBfq because of a byte change in BamToBfqTest when
      switching to OpenJDK17
  * Marking the 60- patch as Forwarded: not-needed

 -- Pierre Gruet <pgt@debian.org>  Fri, 04 Nov 2022 11:09:56 +0100

picard-tools (2.27.4+dfsg-1) unstable; urgency=medium

  * New upstream version 2.27.4+dfsg
  * Refreshing patches
  * Updating d/watch after a change in the Github layout
  * Refreshing the Lintian override for embedded Javascript

 -- Pierre Gruet <pgt@debian.org>  Thu, 22 Sep 2022 20:25:58 +0200

picard-tools (2.27.2+dfsg-2) unstable; urgency=medium

  * Using maven_repo_helper to provide Maven artifacts

 -- Pierre Gruet <pgt@debian.org>  Thu, 07 Jul 2022 16:28:40 +0200

picard-tools (2.27.2+dfsg-1) unstable; urgency=medium

  * New upstream version 2.27.2+dfsg
  * Refreshing patches
  * Raising Standards version to 4.6.1 (no change)
  * Switching from XmX4G to XmX2G in d/rules to enhance build on i386
  * Omitting the build of classes concerned by the removal of the
    com.sun.javadoc package in OpenJDK 17 (Closes: #1013577)

 -- Pierre Gruet <pgt@debian.org>  Sun, 26 Jun 2022 21:40:39 +0200

picard-tools (2.27.1+dfsg-1) unstable; urgency=medium

  * New upstream version 2.27.1+dfsg
  * Refreshing patches
  * Refreshing d/copyright

 -- Pierre Gruet <pgt@debian.org>  Sun, 24 Apr 2022 07:11:18 +0200

picard-tools (2.26.10+dfsg-1) unstable; urgency=medium

  * New upstream version 2.26.10+dfsg
  * Refreshing patches

 -- Pierre Gruet <pgt@debian.org>  Fri, 18 Feb 2022 14:27:22 +0100

picard-tools (2.26.6+dfsg-2) unstable; urgency=medium

  * Removing now useless versioned dependencies
  * Deleting the main class name in the jar invocation by PicardCommandLine

 -- Pierre Gruet <pgt@debian.org>  Sat, 04 Dec 2021 10:21:59 +0100

picard-tools (2.26.6+dfsg-1) unstable; urgency=medium

  [ Pierre Gruet ]
  * New upstream version 2.26.6+dfsg
  * Information in d/README.source is outdated, removing the file
  * Raising Standards version to 4.6.0 (no change)
  * Refreshing d/copyright
  * Refreshing patches
  * Setting properly the classpath in the .manifest file, no jar list
    in PicardCommandLine (Closes: #989961)
  * Updating the list of dependencies
  * Correcting a type error in a test concerning Illumina data provider
  * Adding a Lintian override for the embedded javascript
  * Adding a dependency of the doc package in libjs-jquery (Closes: #989328)
  * Adding myself as uploader

  [ Andreas Tille ]
  * Fix typo in d/u/metadata

 -- Pierre Gruet <pgt@debian.org>  Thu, 02 Dec 2021 21:00:23 +0100

picard-tools (2.24.1+dfsg-1) unstable; urgency=medium

  [ Andreas Tille ]
  * New upstream version
  * Do not delete "*.bai" files after testing

  [ Pierre Gruet ]
  * Correcting the data provider for test testActionsWithDontMergeAbutting

 -- Andreas Tille <tille@debian.org>  Thu, 28 Jan 2021 07:47:42 +0100

picard-tools (2.24.0+dfsg-1) unstable; urgency=medium

  * Team upload.
  * New upstream version
  * Standards-Version: 4.5.1 (routine-update)
  * refresh patches.
    TODO: test failures

 -- Michael R. Crusoe <crusoe@debian.org>  Thu, 07 Jan 2021 13:43:53 +0100

picard-tools (2.23.8+dfsg-3) unstable; urgency=medium

  * Team upload.
  * Oops, should have been Architecture: all everywhere

 -- Michael R. Crusoe <crusoe@debian.org>  Wed, 18 Nov 2020 12:19:16 +0100

picard-tools (2.23.8+dfsg-2) unstable; urgency=medium

  * Team upload.

  [ Steffen Moeller ]
  * New upstream version
  * Added link from /usr/lib/debian-med/bin/picard to PicardCommandLine
    only temporarily for now for presumed compatibility with what conda
    is offering and what bcbio is apparently expecting.
  * Added reference to d/u/metadata as suggested by upstream.

  [ Michael R. Crusoe ]
  * debian/patches/non-intel-skip-intel-tests: Skip two "Intel" specific tests
    on non-amd64 systems.
  * Switch to Architecture: all to match libgkl-java

 -- Michael R. Crusoe <crusoe@debian.org>  Wed, 18 Nov 2020 10:34:59 +0100

picard-tools (2.23.7+dfsg-1) unstable; urgency=medium

  * Team upload.
  * Mark libpicard-java-doc as Multi-Arch: foreign. Thanks multiarch hinter!
  * blhc: ignore false positives with gradle + *ScriptTransformer

 -- Michael R. Crusoe <crusoe@debian.org>  Wed, 14 Oct 2020 11:59:07 +0200

picard-tools (2.23.4+dfsg-3) unstable; urgency=medium

  * Team upload.
  * debian/tests/control: adjustments to avoid testing on non-amd64
    Closes: #970502
  * Mark the remaining patches as not needing forwarding to upstream.

 -- Michael R. Crusoe <crusoe@debian.org>  Thu, 08 Oct 2020 18:41:58 +0200

picard-tools (2.23.4+dfsg-2) unstable; urgency=medium

  * Fixed classpath in picard.jar Manifest (s/:/ /g)

 -- Steffen Moeller <moeller@debian.org>  Fri, 11 Sep 2020 23:40:02 +0200

picard-tools (2.23.4+dfsg-1) unstable; urgency=medium

  [ Michael R. Crusoe ]
  * Standards-Version: 4.5.0 (routine-update)
  * debhelper-compat 13 (routine-update)
  * Refresh patches
  * Remove trailing whitespace in debian/changelog (routine-update)
  * Add salsa-ci file (routine-update)
  * Rules-Requires-Root: no (routine-update)
  * Trim trailing whitespace.
  * Set upstream metadata fields: Bug-Database, Bug-Submit, Repository,
    Repository-Browse.

  [ Andreas Tille ]
  * New upstream version
  * Remove redundant debian/gbp.conf

 -- Andreas Tille <tille@debian.org>  Thu, 10 Sep 2020 17:43:02 +0200

picard-tools (2.22.8+dfsg-1) unstable; urgency=medium

  * New upstream release
  * Source only upload
    Closes: #961865

 -- Olivier Sallou <osallou@debian.org>  Fri, 29 May 2020 08:25:43 +0000

picard-tools (2.18.25+dfsg-3) unstable; urgency=medium

  * Remove libguava-java-doc dependency (Closes: #961700).
  * debian/patches/60-tests-exclude-network.patch remove test needing
    network hostname resolution

 -- Olivier Sallou <osallou@debian.org>  Fri, 29 May 2020 07:11:48 +0000

# Older entries have been removed from this changelog.
# To read the complete changelog use `apt changelog libpicard-java`.
