Merge pull request #213 from mirnylab/develop

v0.8.9
open2c · Jul 18, 2020 · a565090 · a565090
2 parents d14db63 + c09abb1
commit a565090
Show file tree

Hide file tree

Showing 15 changed files with 689 additions and 235 deletions.
diff --git a/CHANGES.md b/CHANGES.md
@@ -2,6 +2,14 @@
 
 ## Upcoming release...
 
+## [v0.8.9](https://github.com/mirnylab/cooler/compare/v0.8.8...v0.8.9)
+
+Date : 2020-07-17
+
+### Enhancements
+* Added single-cell cooler file flavor (.scool) (#201)
+
+
 ## [v0.8.8](https://github.com/mirnylab/cooler/compare/v0.8.7...v0.8.8)
 
 Date : 2020-06-23

diff --git a/cooler/__init__.py b/cooler/__init__.py
@@ -12,7 +12,7 @@
 """
 from ._version import __version__, __format_version__
 from .api import Cooler, annotate
-from .create import create_cooler, rename_chroms
+from .create import create_cooler, rename_chroms, create_scool
 from .reduce import merge_coolers, coarsen_cooler, zoomify_cooler
 from .balance import balance_cooler
 from .util import binnify, read_chromsizes, fetch_chromsizes

diff --git a/cooler/_version.py b/cooler/_version.py
@@ -1,2 +1,4 @@
-__version__ = "0.8.8"
+__version__ = "0.8.9"
 __format_version__ = 3
+__format_version_mcool__ = 2
+__format_version_scool__ = 1
diff --git a/cooler/create/__init__.py b/cooler/create/__init__.py
@@ -2,6 +2,9 @@
 import numpy as np
 
 MAGIC = u"HDF5::Cooler"
+MAGIC_SCOOL = u"HDF5::SCOOL"
+MAGIC_MCOOL = u"HDF5::MCOOL"
+
 URL = u"https://github.com/mirnylab/cooler"
 CHROM_DTYPE = np.dtype("S")
 CHROMID_DTYPE = np.int32
@@ -28,4 +31,4 @@
     ContactBinner,
 )
 
-from ._create import create_cooler, create, create_from_unordered, append, rename_chroms
+from ._create import create_cooler, create, create_from_unordered, append, rename_chroms, create_scool