diff --git a/env.yml b/env.yml
index df6dc398..43105582 100644
--- a/env.yml
+++ b/env.yml
@@ -19,7 +19,7 @@ dependencies:
   - httpx
 
   # Scientific
-  - numpy < 2 # We need to pin numpy to avoid issues with fastpdb/biotite.
+  - numpy < 3
   - pandas
   - scipy
   - scikit-learn
diff --git a/pyproject.toml b/pyproject.toml
index dab2e6eb..e127ad27 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -41,7 +41,7 @@ dependencies = [
     "fsspec[http]",
     "httpx",
     "numcodecs[msgpack]>=0.13.1",
-    "numpy < 2", # We need to pin numpy to avoid issues with fastpdb/biotite.
+    "numpy <3",
     "pandas",
     "pyarrow < 18",
     "pydantic >=2",
@@ -62,7 +62,7 @@ dev = [
     "ipywidgets",
     "jupyterlab",
     "moto[s3]>=5.0.14",
-    "pytest",
+    "pytest >=7",
     "pytest-xdist",
     "pytest-cov",
     "ruff",
@@ -144,4 +144,4 @@ lint.per-file-ignores."__init__.py" = [
 ]
 line-length = 110
 target-version = "py310"
-extend-exclude = ["*.ipynb"]
\ No newline at end of file
+extend-exclude = ["*.ipynb"]
diff --git a/uv.lock b/uv.lock
index 13664469..448c249a 100644
--- a/uv.lock
+++ b/uv.lock
@@ -8,16 +8,16 @@ resolution-markers = [
 
 [[package]]
 name = "aiohappyeyeballs"
-version = "2.4.4"
+version = "2.4.6"
 source = { registry = "https://pypi.org/simple" }
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 wheels = [
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+    { url = "https://files.pythonhosted.org/packages/44/4c/03fb05f56551828ec67ceb3665e5dc51638042d204983a03b0a1541475b6/aiohappyeyeballs-2.4.6-py3-none-any.whl", hash = "sha256:147ec992cf873d74f5062644332c539fcd42956dc69453fe5204195e560517e1", size = 14543 },
 ]
 
 [[package]]
 name = "aiohttp"
-version = "3.11.11"
+version = "3.11.12"
 source = { registry = "https://pypi.org/simple" }
 dependencies = [
     { name = "aiohappyeyeballs" },
@@ -29,53 +29,56 @@ dependencies = [
     { name = "propcache" },
     { name = "yarl" },
 ]
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@@ -2235,7 +2268,8 @@ dependencies = [
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     { name = "typing-extensions" },
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-    { name = "numpy", specifier = "<2" },
+    { name = "numpy", specifier = "<3" },
     { name = "pandas" },
     { name = "pyarrow", specifier = "<18" },
     { name = "pydantic", specifier = ">=2" },
@@ -2294,7 +2328,7 @@ dev = [
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     { name = "jupyterlab" },
     { name = "moto", extras = ["s3"], specifier = ">=5.0.14" },
-    { name = "pytest" },
+    { name = "pytest", specifier = ">=7" },
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     { name = "pytest-xdist" },
     { name = "ruff" },
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