Merge pull request #1055 from NeurodataWithoutBorders/fix-e2e-main

Pin pandas < 3.0 to fix E2E test failure

Author: bendichter

environments/environment-Linux.yml

@@ -16,6 +16,7 @@ dependencies:
       - flask_restx == 1.1.0
       - werkzeug < 3.0 # werkzeug 3.0 deprecates features used by flask 2.3.2. Remove this when updating flask.
       - neuroconv[dandi,compressors,ecephys,ophys,behavior,text] == 0.6.1
+      - pandas < 3.0  # pandas 3.0 returns read-only arrays, breaking spikeinterface Phy extractor
       - neo == 0.14.1 # 0.14.2 is not compatible with neuroconv < 0.7.5
       - scikit-learn == 1.4.0 # Tutorial data generation
       - tqdm_publisher >= 0.0.1 # Progress bars

environments/environment-MAC-apple-silicon.yml

@@ -9,7 +9,7 @@ dependencies:
   - lxml = 4.9.3 # PyPI build fails due to x64/arm64 mismatch so install from conda-forge
   - pyedflib = 0.1.38 # PyPI build fails due to x64/arm64 mismatch so install from conda-forge
   - numpy # May have x64/arm64 mismatch issues so install from conda-forge
-  - pytables = 3.10.2 # PyPI build fails on arm64 so install from conda-forge (used by neuroconv deps)
+  - pytables = 3.9.1 # PyPI build fails on arm64; must be <3.9.2 per neuroconv 0.6.1 constraint
   - jsonschema = 4.18.0 # Also installs jsonschema-specifications
   - pip
   - pip:
@@ -24,6 +24,7 @@ dependencies:
       # NOTE: the NeuroConv wheel on PyPI includes sonpy which is not compatible with arm64, so build and install
       # NeuroConv from GitHub, which will remove the sonpy dependency when building from Mac arm64
       - neuroconv[dandi,compressors,ecephys,ophys,behavior,text] == 0.6.1
+      - pandas < 3.0  # pandas 3.0 returns read-only arrays, breaking spikeinterface Phy extractor
       - neo == 0.14.1 # 0.14.2 is not compatible with neuroconv < 0.7.5
       - scikit-learn == 1.4.0 # Tutorial data generation
       - tqdm_publisher >= 0.0.1 # Progress bars

environments/environment-MAC-intel.yml

@@ -19,6 +19,7 @@ dependencies:
       - flask_restx == 1.1.0
       - werkzeug < 3.0 # werkzeug 3.0 deprecates features used by flask 2.3.2. Remove this when updating flask.
       - neuroconv[dandi,compressors,ecephys,ophys,behavior,text] == 0.6.1
+      - pandas < 3.0  # pandas 3.0 returns read-only arrays, breaking spikeinterface Phy extractor
       - neo == 0.14.1 # 0.14.2 is not compatible with neuroconv < 0.7.5
       - scikit-learn == 1.4.0 # Tutorial data generation
       - tqdm_publisher >= 0.0.1 # Progress bars

environments/environment-Windows.yml

@@ -19,6 +19,7 @@ dependencies:
       - flask_restx == 1.1.0
       - werkzeug < 3.0 # werkzeug 3.0 deprecates features used by flask 2.3.2. Remove this when updating flask.
       - neuroconv[dandi,compressors,ecephys,ophys,behavior,text] == 0.6.1
+      - pandas < 3.0  # pandas 3.0 returns read-only arrays, breaking spikeinterface Phy extractor
       - neo == 0.14.1 # 0.14.2 is not compatible with neuroconv < 0.7.5
       - scikit-learn == 1.4.0 # Tutorial data generation
       - tqdm_publisher >= 0.0.1 # Progress bars