From 286ff4a3f94eac2ebe3c73e74623946b2f6f22ad Mon Sep 17 00:00:00 2001
From: "dependabot[bot]" <49699333+dependabot[bot]@users.noreply.github.com>
Date: Tue, 23 Jan 2024 18:20:10 +0000
Subject: [PATCH 01/12] chore(deps): bump selenium from 4.16.0 to 4.17.2

Bumps [selenium](https://github.com/SeleniumHQ/Selenium) from 4.16.0 to 4.17.2.
- [Release notes](https://github.com/SeleniumHQ/Selenium/releases)
- [Commits](https://github.com/SeleniumHQ/Selenium/commits)

---
updated-dependencies:
- dependency-name: selenium
  dependency-type: direct:production
  update-type: version-update:semver-minor
...

Signed-off-by: dependabot[bot] <support@github.com>
---
 requirements.txt | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/requirements.txt b/requirements.txt
index 7ae9c728..22ff1806 100644
--- a/requirements.txt
+++ b/requirements.txt
@@ -25,7 +25,7 @@ mat73==0.62
 torch==2.1.2
 torchvision==0.16.2
 torchaudio==2.1.2
-selenium==4.16.0
+selenium==4.17.2
 skl2onnx==1.16.0
 onnx==1.15.0
 onnxruntime==1.16.3

From 573ab073bc6dfbc462692385203201ee0b0bede3 Mon Sep 17 00:00:00 2001
From: "dependabot[bot]" <49699333+dependabot[bot]@users.noreply.github.com>
Date: Tue, 23 Jan 2024 18:20:19 +0000
Subject: [PATCH 02/12] chore(deps): bump optuna from 3.4.0 to 3.5.0

Bumps [optuna](https://github.com/optuna/optuna) from 3.4.0 to 3.5.0.
- [Release notes](https://github.com/optuna/optuna/releases)
- [Commits](https://github.com/optuna/optuna/compare/v3.4.0...v3.5.0)

---
updated-dependencies:
- dependency-name: optuna
  dependency-type: direct:production
  update-type: version-update:semver-minor
...

Signed-off-by: dependabot[bot] <support@github.com>
---
 requirements.txt | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/requirements.txt b/requirements.txt
index 7ae9c728..74b90e1c 100644
--- a/requirements.txt
+++ b/requirements.txt
@@ -6,7 +6,7 @@ matplotlib==3.8.2
 natsort==8.4.0
 numpy==1.26.3
 opencv_contrib_python==4.8.1.78
-optuna==3.4.0
+optuna==3.5.0
 Pillow==10.2.0
 pytest==7.4.4
 scikit_learn==1.4.0

From b3fa65405aba5ba9e343b6f47c1846b14ebad56f Mon Sep 17 00:00:00 2001
From: "dependabot[bot]" <49699333+dependabot[bot]@users.noreply.github.com>
Date: Thu, 25 Jan 2024 18:36:52 +0000
Subject: [PATCH 03/12] chore(deps): bump seaborn from 0.13.1 to 0.13.2

Bumps [seaborn](https://github.com/mwaskom/seaborn) from 0.13.1 to 0.13.2.
- [Release notes](https://github.com/mwaskom/seaborn/releases)
- [Commits](https://github.com/mwaskom/seaborn/compare/v0.13.1...v0.13.2)

---
updated-dependencies:
- dependency-name: seaborn
  dependency-type: direct:production
  update-type: version-update:semver-patch
...

Signed-off-by: dependabot[bot] <support@github.com>
---
 requirements.txt | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/requirements.txt b/requirements.txt
index 5126983d..b6c8e087 100644
--- a/requirements.txt
+++ b/requirements.txt
@@ -11,7 +11,7 @@ Pillow==10.2.0
 pytest==7.4.4
 scikit_learn==1.4.0
 scipy==1.12.0
-seaborn==0.13.1
+seaborn==0.13.2
 sparse==0.15.1
 tqdm==4.66.1
 umap_learn==0.5.5

From 72a17f0c005f2fc3c4912978d71b52277e2d4074 Mon Sep 17 00:00:00 2001
From: RichieHakim <RichHakim@gmail.com>
Date: Thu, 25 Jan 2024 15:19:02 -0500
Subject: [PATCH 04/12] add macos-12 to build.yml and update opencv to <=4.9

---
 .github/workflows/build.yml | 2 +-
 requirements.txt            | 2 +-
 2 files changed, 2 insertions(+), 2 deletions(-)

diff --git a/.github/workflows/build.yml b/.github/workflows/build.yml
index 83954a85..f4829296 100644
--- a/.github/workflows/build.yml
+++ b/.github/workflows/build.yml
@@ -36,7 +36,7 @@ jobs:
           windows-2022,
           windows-2019,
           # # macos-latest,
-          # macos-12.0,
+          macos-12,
           macos-11.0,
           # macos-10.15,
         ]
diff --git a/requirements.txt b/requirements.txt
index 7ae9c728..702444c9 100644
--- a/requirements.txt
+++ b/requirements.txt
@@ -5,7 +5,7 @@ kymatio==0.3.0
 matplotlib==3.8.2
 natsort==8.4.0
 numpy==1.26.3
-opencv_contrib_python==4.8.1.78
+opencv_contrib_python<=4.9.0.80
 optuna==3.4.0
 Pillow==10.2.0
 pytest==7.4.4

From 8cb8e677e2ec343d49c4ffbbcfd4ff2f566bd046 Mon Sep 17 00:00:00 2001
From: RichieHakim <RichHakim@gmail.com>
Date: Thu, 25 Jan 2024 17:05:54 -0500
Subject: [PATCH 05/12] Add platform-specific dependency for macOS

---
 setup.py | 19 ++++++++++++++++---
 1 file changed, 16 insertions(+), 3 deletions(-)

diff --git a/setup.py b/setup.py
index 8f2b5d98..947c8aff 100644
--- a/setup.py
+++ b/setup.py
@@ -1,11 +1,14 @@
 ## setup.py file for roicat
 from pathlib import Path
+import copy
+import platform
 
 from distutils.core import setup
-import copy
 
+## Get the parent directory of this file
 dir_parent = Path(__file__).parent
 
+## Get requirements from requirements.txt
 def read_requirements():
     with open(str(dir_parent / "requirements.txt"), "r") as req:
         content = req.read()  ## read the file
@@ -19,9 +22,9 @@ def read_requirements():
     requirements = [req.replace(",", "").replace("\"", "").replace("\'", "").strip() for req in requirements]
 
     return requirements
-
 deps_all = read_requirements()
 
+
 ## Dependencies: latest versions of requirements
 ### remove everything starting and after the first =,>,<,! sign
 deps_names = [req.split('=')[0].split('>')[0].split('<')[0].split('!')[0] for req in deps_all]
@@ -29,6 +32,15 @@ def read_requirements():
 
 deps_all_latest = copy.deepcopy(deps_names)
 
+
+## Operating system specific dependencies
+### OpenCV >= 4.9 is not supported on macOS < 12
+system, version = platform.system(), platform.mac_ver()[0]
+if system == "Darwin" and version and ('opencv_contrib_python' in deps_all_dict):
+    if tuple(map(int, version.split('.'))) < (12, 0, 0):
+        deps_all_dict['opencv_contrib_python'] = "opencv_contrib_python<=4.8.1.78"
+
+
 ## Make different versions of dependencies
 ### Also pull out the version number from the requirements (specified in deps_all_dict values).
 deps_core = [deps_all_dict[dep] for dep in [
@@ -72,11 +84,12 @@ def read_requirements():
     'kymatio',
 ]] + deps_core
 
+
 ## Get README.md
 with open(str(dir_parent / "README.md"), "r") as f:
     readme = f.read()
 
-## Get version number
+## Get ROICaT version number
 with open(str(dir_parent / "roicat" / "__init__.py"), "r") as f:
     for line in f:
         if line.startswith("__version__"):

From 71847198731093060e4b572fac37c30473f0a801 Mon Sep 17 00:00:00 2001
From: RichieHakim <RichHakim@gmail.com>
Date: Thu, 25 Jan 2024 17:13:20 -0500
Subject: [PATCH 06/12] bug fix

---
 setup.py | 14 +++++++-------
 1 file changed, 7 insertions(+), 7 deletions(-)

diff --git a/setup.py b/setup.py
index 947c8aff..2bb2b5ad 100644
--- a/setup.py
+++ b/setup.py
@@ -30,7 +30,7 @@ def read_requirements():
 deps_names = [req.split('=')[0].split('>')[0].split('<')[0].split('!')[0] for req in deps_all]
 deps_all_dict = dict(zip(deps_names, deps_all))
 
-deps_all_latest = copy.deepcopy(deps_names)
+deps_all_latest = dict(zip(deps_names, deps_names))
 
 
 ## Operating system specific dependencies
@@ -38,7 +38,8 @@ def read_requirements():
 system, version = platform.system(), platform.mac_ver()[0]
 if system == "Darwin" and version and ('opencv_contrib_python' in deps_all_dict):
     if tuple(map(int, version.split('.'))) < (12, 0, 0):
-        deps_all_dict['opencv_contrib_python'] = "opencv_contrib_python<=4.8.1.78"
+        version_opencv_macosSub12 = "opencv_contrib_python<=4.8.1.78"
+        deps_all_dict['opencv_contrib_python'], deps_all_latest['opencv_contrib_python'] = version_opencv_macosSub12, version_opencv_macosSub12
 
 
 ## Make different versions of dependencies
@@ -65,21 +66,20 @@ def read_requirements():
     'psutil',
     'py_cpuinfo',
     'GPUtil',
+    'skl2onnx',
+    'onnx',
+    'onnxruntime',
+    'opencv_contrib_python',
 ]]
 
 deps_classification = [deps_all_dict[dep] for dep in [
-    'opencv_contrib_python',
     'umap_learn',
     'bokeh',
     'holoviews[recommended]',
     'jupyter_bokeh',
-    'skl2onnx',
-    'onnx',
-    'onnxruntime',
 ]] + deps_core
 
 deps_tracking = [deps_all_dict[dep] for dep in [
-    'opencv_contrib_python',
     'hdbscan',
     'kymatio',
 ]] + deps_core

From 893cb0e246b83f4e1187086adca34e4365bbecfa Mon Sep 17 00:00:00 2001
From: RichieHakim <RichHakim@gmail.com>
Date: Thu, 25 Jan 2024 17:51:19 -0500
Subject: [PATCH 07/12] Refactor OpenCV version for macOS < 12

---
 setup.py | 21 ++++++++++++++-------
 1 file changed, 14 insertions(+), 7 deletions(-)

diff --git a/setup.py b/setup.py
index 2bb2b5ad..96137958 100644
--- a/setup.py
+++ b/setup.py
@@ -33,13 +33,20 @@ def read_requirements():
 deps_all_latest = dict(zip(deps_names, deps_names))
 
 
-## Operating system specific dependencies
-### OpenCV >= 4.9 is not supported on macOS < 12
-system, version = platform.system(), platform.mac_ver()[0]
-if system == "Darwin" and version and ('opencv_contrib_python' in deps_all_dict):
-    if tuple(map(int, version.split('.'))) < (12, 0, 0):
-        version_opencv_macosSub12 = "opencv_contrib_python<=4.8.1.78"
-        deps_all_dict['opencv_contrib_python'], deps_all_latest['opencv_contrib_python'] = version_opencv_macosSub12, version_opencv_macosSub12
+# Operating system specific dependencies
+# OpenCV >= 4.9 is not supported on macOS < 12
+system, version_macos = platform.system(), platform.mac_ver()[0]
+
+if system == "Darwin" and version_macos:
+    # Safely convert version string components to integers
+    version_parts = version_macos.split('.')
+    version_major_macos= int(version_parts[0])
+
+    # Check macOS version and adjust the OpenCV version accordingly
+    if (version_major_macos < 12) and ('opencv_contrib_python' in deps_all_dict):
+        version_opencv_macos_sub12 = "opencv_contrib_python<=4.8.1.78"
+        deps_all_dict['opencv_contrib_python'] = version_opencv_macos_sub12
+        deps_all_latest['opencv_contrib_python'] = version_opencv_macos_sub12
 
 
 ## Make different versions of dependencies

From 7b82b3bc2da75fa27b6ec34d62a41ed1c8414ac4 Mon Sep 17 00:00:00 2001
From: RichieHakim <RichHakim@gmail.com>
Date: Thu, 25 Jan 2024 20:13:44 -0500
Subject: [PATCH 08/12] trying to debug why opencv stuff isn't working

---
 setup.py | 7 ++++---
 1 file changed, 4 insertions(+), 3 deletions(-)

diff --git a/setup.py b/setup.py
index 96137958..348bce7c 100644
--- a/setup.py
+++ b/setup.py
@@ -36,15 +36,16 @@ def read_requirements():
 # Operating system specific dependencies
 # OpenCV >= 4.9 is not supported on macOS < 12
 system, version_macos = platform.system(), platform.mac_ver()[0]
-
-if system == "Darwin" and version_macos:
+print(f"System: {system}, macOS version: {version_macos}")
+if (system == "Darwin"):
     # Safely convert version string components to integers
     version_parts = version_macos.split('.')
-    version_major_macos= int(version_parts[0])
+    version_major_macos = int(version_parts[0])
 
     # Check macOS version and adjust the OpenCV version accordingly
     if (version_major_macos < 12) and ('opencv_contrib_python' in deps_all_dict):
         version_opencv_macos_sub12 = "opencv_contrib_python<=4.8.1.78"
+        print(f"Detected macOS version {version_major_macos}, which is < 12. Installing an older version of OpenCV: {version_opencv_macos_sub12}")
         deps_all_dict['opencv_contrib_python'] = version_opencv_macos_sub12
         deps_all_latest['opencv_contrib_python'] = version_opencv_macos_sub12
 

From d72fe88b6bdca6b5f43ab7233baea6af09b64c71 Mon Sep 17 00:00:00 2001
From: RichieHakim <RichHakim@gmail.com>
Date: Thu, 25 Jan 2024 20:19:51 -0500
Subject: [PATCH 09/12] bug fix for install

---
 setup.py | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/setup.py b/setup.py
index 348bce7c..0726423b 100644
--- a/setup.py
+++ b/setup.py
@@ -124,8 +124,8 @@ def read_requirements():
     
     install_requires=[],
     extras_require={
-        'all': deps_all,
-        'all_latest': deps_all_latest,
+        'all': list(deps_all_dict.values()),
+        'all_latest': list(deps_all_latest.values()),
         'core': deps_core,
         'classification': deps_classification,
         'tracking': deps_tracking,

From 41450a984b5cc330e7ac9eb1d251d6e2ca138c17 Mon Sep 17 00:00:00 2001
From: "dependabot[bot]" <49699333+dependabot[bot]@users.noreply.github.com>
Date: Fri, 26 Jan 2024 18:33:35 +0000
Subject: [PATCH 10/12] chore(deps): bump bokeh from 3.3.3 to 3.3.4

Bumps [bokeh](https://github.com/bokeh/bokeh) from 3.3.3 to 3.3.4.
- [Changelog](https://github.com/bokeh/bokeh/blob/3.3.4/docs/CHANGELOG)
- [Commits](https://github.com/bokeh/bokeh/compare/3.3.3...3.3.4)

---
updated-dependencies:
- dependency-name: bokeh
  dependency-type: direct:production
  update-type: version-update:semver-patch
...

Signed-off-by: dependabot[bot] <support@github.com>
---
 requirements.txt | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/requirements.txt b/requirements.txt
index c1e142c5..14812df2 100644
--- a/requirements.txt
+++ b/requirements.txt
@@ -16,7 +16,7 @@ sparse==0.15.1
 tqdm==4.66.1
 umap_learn==0.5.5
 xxhash==3.4.1
-bokeh==3.3.3
+bokeh==3.3.4
 psutil==5.9.8
 py_cpuinfo==9.0.0
 GPUtil==1.4.0

From 1c8f06a624818d5fd2be7d5ba225053fea4727b4 Mon Sep 17 00:00:00 2001
From: RichieHakim <RichHakim@gmail.com>
Date: Sun, 28 Jan 2024 13:20:44 -0500
Subject: [PATCH 11/12] Refactor parameter dictionary helpers into helpers

---
 roicat/helpers.py         | 82 +++++++++++++++++++++++++++++++++++++++
 roicat/pipelines.py       |  4 +-
 roicat/util.py            | 78 -------------------------------------
 tests/test_integration.py |  2 +-
 4 files changed, 85 insertions(+), 81 deletions(-)

diff --git a/roicat/helpers.py b/roicat/helpers.py
index 376006f1..36acee14 100644
--- a/roicat/helpers.py
+++ b/roicat/helpers.py
@@ -200,6 +200,88 @@ def flatten_dict(d: MutableMapping, parent_key: str = '', sep: str ='.') -> Muta
             items.append((new_key, v))
     return dict(items)
 
+## parameter dictionary helpers ##
+
+def fill_in_dict(
+    d: Dict, 
+    defaults: Dict,
+    verbose: bool = True,
+    hierarchy: List[str] = ['dict'], 
+):
+    """
+    In-place. Fills in dictionary ``d`` with values from ``defaults`` if they
+    are missing. Works hierachically.
+    RH 2023
+
+    Args:
+        d (Dict):
+            Dictionary to fill in.
+            In-place.
+        defaults (Dict):
+            Dictionary of defaults.
+        verbose (bool):
+            Whether to print messages.
+        hierarchy (List[str]):
+            Used internally for recursion.
+            Hierarchy of keys to d.
+    """
+    from copy import deepcopy
+    for key in defaults:
+        if key not in d:
+            print(f"Key '{key}' not found in params dictionary: {' > '.join([f'{str(h)}' for h in hierarchy])}. Using default value: {defaults[key]}") if verbose else None
+            d.update({key: deepcopy(defaults[key])})
+        elif isinstance(defaults[key], dict):
+            assert isinstance(d[key], dict), f"Key '{key}' is a dict in defaults, but not in params. {' > '.join([f'{str(h)}' for h in hierarchy])}."
+            fill_in_dict(d[key], defaults[key], hierarchy=hierarchy+[key])
+            
+
+def check_keys_subset(d, default_dict, hierarchy=['defaults']):
+    """
+    Checks that the keys in d are all in default_dict. Raises an error if not.
+    RH 2023
+
+    Args:
+        d (Dict):
+            Dictionary to check.
+        default_dict (Dict):
+            Dictionary containing the keys to check against.
+        hierarchy (List[str]):
+            Used internally for recursion.
+            Hierarchy of keys to d.
+    """
+    default_keys = list(default_dict.keys())
+    for key in d.keys():
+        assert key in default_keys, f"Parameter '{key}' not found in defaults dictionary: {' > '.join([f'{str(h)}' for h in hierarchy])}."
+        if isinstance(default_dict[key], dict) and isinstance(d[key], dict):
+            check_keys_subset(d[key], default_dict[key], hierarchy=hierarchy+[key])
+
+
+def prepare_params(params, defaults, verbose=True):
+    """
+    Does the following:
+        * Checks that all keys in ``params`` are in ``defaults``.
+        * Fills in any missing keys in ``params`` with values from ``defaults``.
+        * Returns a deepcopy of the filled-in ``params``.
+
+    Args:
+        params (Dict):
+            Dictionary of parameters.
+        defaults (Dict):
+            Dictionary of defaults.
+        verbose (bool):
+            Whether to print messages.
+    """
+    from copy import deepcopy
+    ## Check inputs
+    assert isinstance(params, dict), f"p must be a dict. Got {type(params)} instead."
+    ## Make sure all the keys in p are valid
+    check_keys_subset(params, defaults)
+    ## Fill in any missing keys with defaults
+    params_out = deepcopy(params)
+    fill_in_dict(params_out, defaults, verbose=verbose)
+
+    return params_out
+
 
 ######################################################################################################################################
 ####################################################### MATH FUNCTIONS ###############################################################
diff --git a/roicat/pipelines.py b/roicat/pipelines.py
index 75d71074..f351c6fa 100644
--- a/roicat/pipelines.py
+++ b/roicat/pipelines.py
@@ -30,12 +30,12 @@ def pipeline_tracking(params: dict):
                 pipeline.
             params (dict):
                 Parameters used in the pipeline. See
-                ``roicat.util.prepare_params()`` for details.
+                ``roicat.helpers.prepare_params()`` for details.
     """
 
     ## Prepare params
     defaults = util.get_default_parameters(pipeline='tracking')
-    params = util.prepare_params(params, defaults, verbose=True)
+    params = helpers.prepare_params(params, defaults, verbose=True)
     display(params)
 
     ## Prepare state variables
diff --git a/roicat/util.py b/roicat/util.py
index 30e49049..e0fedbe2 100644
--- a/roicat/util.py
+++ b/roicat/util.py
@@ -250,84 +250,6 @@ def get_default_parameters(
 
     return out
 
-def fill_in_params(
-    d: Dict, 
-    defaults: Dict,
-    verbose: bool = True,
-    hierarchy: List[str] = ['params'], 
-):
-    """
-    In-place. Fills in dictionary ``d`` with values from ``defaults`` if they
-    are missing. Works hierachically.
-    RH 2023
-
-    Args:
-        d (Dict):
-            Dictionary to fill in.
-            In-place.
-        defaults (Dict):
-            Dictionary of defaults.
-        verbose (bool):
-            Whether to print messages.
-        hierarchy (List[str]):
-            Used internally for recursion.
-            Hierarchy of keys to d.
-    """
-    from copy import deepcopy
-    for key in defaults:
-        if key not in d:
-            print(f"Parameter '{key}' not found in params dictionary: {' > '.join([f'{str(h)}' for h in hierarchy])}. Using default value: {defaults[key]}") if verbose else None
-            d.update({key: deepcopy(defaults[key])})
-        elif isinstance(defaults[key], dict):
-            assert isinstance(d[key], dict), f"Parameter '{key}' must be a dictionary."
-            fill_in_params(d[key], defaults[key], hierarchy=hierarchy+[key])
-            
-def check_keys_subset(d, default_dict, hierarchy=['defaults']):
-    """
-    Checks that the keys in d are all in default_dict. Raises an error if not.
-    RH 2023
-
-    Args:
-        d (Dict):
-            Dictionary to check.
-        default_dict (Dict):
-            Dictionary containing the keys to check against.
-        hierarchy (List[str]):
-            Used internally for recursion.
-            Hierarchy of keys to d.
-    """
-    default_keys = list(default_dict.keys())
-    for key in d.keys():
-        assert key in default_keys, f"Parameter '{key}' not found in defaults dictionary: {' > '.join([f'{str(h)}' for h in hierarchy])}."
-        if isinstance(default_dict[key], dict) and isinstance(d[key], dict):
-            check_keys_subset(d[key], default_dict[key], hierarchy=hierarchy+[key])
-
-def prepare_params(params, defaults, verbose=True):
-    """
-    Does the following:
-        * Checks that all keys in ``params`` are in ``defaults``.
-        * Fills in any missing keys in ``params`` with values from ``defaults``.
-        * Returns a deepcopy of the filled-in ``params``.
-
-    Args:
-        params (Dict):
-            Dictionary of parameters.
-        defaults (Dict):
-            Dictionary of defaults.
-        verbose (bool):
-            Whether to print messages.
-    """
-    from copy import deepcopy
-    ## Check inputs
-    assert isinstance(params, dict), f"p must be a dict. Got {type(params)} instead."
-    ## Make sure all the keys in p are valid
-    check_keys_subset(params, defaults)
-    ## Fill in any missing keys with defaults
-    params_out = deepcopy(params)
-    fill_in_params(params_out, defaults, verbose=verbose)
-
-    return params_out
-
 
 def system_info(verbose: bool = False,) -> Dict:
     """
diff --git a/tests/test_integration.py b/tests/test_integration.py
index 6688d65b..e0fb9bcb 100644
--- a/tests/test_integration.py
+++ b/tests/test_integration.py
@@ -62,7 +62,7 @@ def test_pipeline_tracking_simple(dir_data_test):
             },
         },
     }
-    params = util.prepare_params(params_partial, defaults)
+    params = helpers.prepare_params(params_partial, defaults)
     results, run_data, params = pipelines.pipeline_tracking(params)
 
     #check that results fields are not empty

From 3929c447841f0dc770554f730392c213edd6fec8 Mon Sep 17 00:00:00 2001
From: RichieHakim <RichHakim@gmail.com>
Date: Sun, 28 Jan 2024 13:25:39 -0500
Subject: [PATCH 12/12] Bumped up version to 1.1.29

---
 roicat/__init__.py | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/roicat/__init__.py b/roicat/__init__.py
index 9ea1e53c..150c539e 100644
--- a/roicat/__init__.py
+++ b/roicat/__init__.py
@@ -13,4 +13,4 @@
 for pkg in __all__:
     exec('from . import ' + pkg)
 
-__version__ = '1.1.28'
+__version__ = '1.1.29'