From b8ae6d63fe2012b72b21404680687887061b6592 Mon Sep 17 00:00:00 2001
From: Cody Baker <51133164+CodyCBakerPhD@users.noreply.github.com>
Date: Thu, 26 Sep 2024 02:06:04 -0400
Subject: [PATCH] Move RTD files (#515)

* Delete requirements-rtd.txt

* Delete .readthedocs.yaml

* Update doc-link-checks.yml

* Update .readthedocs.yaml

* h5py version pin

* syntax
---
 .github/workflows/doc-link-checks.yml |  2 +-
 .readthedocs.yaml                     | 23 -----------------------
 docs/.readthedocs.yaml                |  2 +-
 pyproject.toml                        |  3 ++-
 requirements-rtd.txt                  |  7 -------
 5 files changed, 4 insertions(+), 33 deletions(-)
 delete mode 100644 .readthedocs.yaml
 delete mode 100644 requirements-rtd.txt

diff --git a/.github/workflows/doc-link-checks.yml b/.github/workflows/doc-link-checks.yml
index 6b30d93b0..3aaa4d5d8 100644
--- a/.github/workflows/doc-link-checks.yml
+++ b/.github/workflows/doc-link-checks.yml
@@ -17,7 +17,7 @@ jobs:
           python-version: 3.9
 
       - name: Install Sphinx dependencies
-        run: pip install -r requirements-rtd.txt
+        run: pip install -r docs/requirements-rtd.txt
       - name: Install package for API docs
         run: pip install -e .
 
diff --git a/.readthedocs.yaml b/.readthedocs.yaml
deleted file mode 100644
index a0d4dd7b1..000000000
--- a/.readthedocs.yaml
+++ /dev/null
@@ -1,23 +0,0 @@
-# Read the Docs configuration file
-# See https://docs.readthedocs.io/en/stable/config-file/v2.html for details
-
-# Required
-version: 2
-
-# Set the version of Python and other tools you might need
-build:
-  os: ubuntu-20.04
-  tools:
-    python: "3.9"
-
-# Build documentation in the docs/ directory with Sphinx
-sphinx:
-  configuration: docs/conf.py
-  fail_on_warning: true
-
-# Python requirements required to build your docs
-python:
-  install:
-    - requirements: requirements-rtd.txt
-    - method: pip
-      path: .
diff --git a/docs/.readthedocs.yaml b/docs/.readthedocs.yaml
index a0d4dd7b1..4864cad6e 100644
--- a/docs/.readthedocs.yaml
+++ b/docs/.readthedocs.yaml
@@ -18,6 +18,6 @@ sphinx:
 # Python requirements required to build your docs
 python:
   install:
-    - requirements: requirements-rtd.txt
+    - requirements: docs/requirements-rtd.txt
     - method: pip
       path: .
diff --git a/pyproject.toml b/pyproject.toml
index afb56999e..826dc8bf2 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -45,7 +45,8 @@ dependencies = [
     "click",
     "tqdm",
     "isodate",
-    "numpy>=1.22.0,<2.0.0" # TODO: add compatibility for 2.0
+    "numpy>=1.22.0,<2.0.0", # TODO: add compatibility for 2.0 - HDMF Zarr and others also still have some troubles
+    "h5py<3.12.0", # TODO: remove pin when https://github.com/h5py/h5py/issues/2505 is fixed and released
 ]
 
 [project.optional-dependencies]
diff --git a/requirements-rtd.txt b/requirements-rtd.txt
deleted file mode 100644
index cf9500d54..000000000
--- a/requirements-rtd.txt
+++ /dev/null
@@ -1,7 +0,0 @@
-numpy
-jsonschema==3.2.0
-Jinja2>=3.1.3
-sphinx==5.1.1
-sphinx_rtd_theme==0.5.1
-readthedocs-sphinx-search==0.3.2
-sphinx-copybutton==0.5.0