REL: denote 2.1.16 (#968)

* REL: denote 2.1.16

* Minor reorg on changelog

ChangeLog.md

@@ -1,11 +1,15 @@
 BIOM-Format ChangeLog
 =====================
 
-biom 2.1.15-dev
----------------
+biom 2.1.16
+-----------
+
+Maintenance, bug fix, performance and feature release, May 9th 2024.
 
 New features:
 
+* Add Windows support. PR[#951](https://github.com/biocore/biom-format/pull/951) revises codebase to be Windows compatible and adds this support to the CI testing matrix.
+* Add NumPy 2.0 support. PR [#950](https://github.com/biocore/biom-format/pull/950) ensures code compatibility with NumPy 2.0. This support is yet to be added to the CI testing matrix.
 * Expand API for `Table.partition` to allow for passing `dict` mappings from ids to groups and vice versa, remove of empty vectors, and ignoring `None` partitions. See issue [#937](https://github.com/biocore/biom-format/issues/937)
 * NumPy 2.0 support, see issue [#956](https://github.com/biocore/biom-format/issues/956)
 * The optimized subsample without replacement method is now exposed as `biom.subsample`. Note that this method operates inplace on SciPy `csr_matrix` and `csc_matrix` objects. See issue [#958](https://github.com/biocore/biom-format/issues/958)
@@ -18,8 +22,6 @@ Bug Fixes:
 
 Performance improvements:
 
-* Add Windows support. PR[#951](https://github.com/biocore/biom-format/pull/951) revises codebase to be Windows compatible and adds this support to the CI testing matrix.
-* Add NumPy 2.0 support. PR [#950](https://github.com/biocore/biom-format/pull/950) ensures code compatibility with NumPy 2.0. This support is yet to be added to the CI testing matrix.
 * Revise `Table._fast_merge` to use COO directly. For very large tables, this reduces runtime by ~50x and memory by ~5x. See PR [#913](https://github.com/biocore/biom-format/pull/933).
 * Drastically reduce the memory needs of subsampling when sums are large. Also adds 64-bit support. See PR [#935](https://github.com/biocore/biom-format/pull/935).
 * Improve handling of not-perfectly-integer inputs. See PR [#938](https://github.com/biocore/biom-format/pull/938).

biom/util.py

@@ -41,7 +41,7 @@
 __maintainer__ = "Daniel McDonald"
 __email__ = "[email protected]"
 __format_version__ = (2, 1)
-__version__ = "2.1.15-dev"
+__version__ = "2.1.16"
 
 
 def generate_subsamples(table, n, axis='sample', by_id=False):

doc/conf.py

@@ -57,15 +57,15 @@
 
 # General information about the project.
 project = 'biom-format'
-copyright = '2011-2022 The BIOM Format Development Team'
+copyright = '2011-2024 The BIOM Format Development Team'
 
 # The version info for the project you're documenting, acts as replacement for
 # |version| and |release|, also used in various other places throughout the
 # built documents.
 #
 # The full version, including alpha/beta/rc tags.
-version = "2.1.15-dev"
-release = "2.1.15-dev"
+version = "2.1.16"
+release = "2.1.16"
 
 # The language for content autogenerated by Sphinx. Refer to documentation
 # for a list of supported languages.

setup.py

@@ -32,7 +32,7 @@
 __credits__ = ["Greg Caporaso", "Daniel McDonald", "Jose Clemente",
                "Jai Ram Rideout", "Jorge Cañardo Alastuey", "Michael Hall"]
 __license__ = "BSD"
-__version__ = "2.1.15-dev"
+__version__ = "2.1.16"
 __maintainer__ = "Daniel McDonald"
 __email__ = "[email protected]"