diff --git a/docs/pyproject.toml b/docs/pyproject.toml
index f3eafbe..c49e023 100644
--- a/docs/pyproject.toml
+++ b/docs/pyproject.toml
@@ -8,16 +8,14 @@ authors = [
 license = {text = "AGPL-3.0"}
 requires-python = "<3.13,>=3.10"
 dependencies = [
-#    "nwb-linkml",
-#    "nwb-schema-language",
+    "nwb-linkml @ file:///${PROJECT_ROOT}/../nwb_linkml",
+    "nwb-schema-language @ file:///${PROJECT_ROOT}/../nwb_schema_language",
     "sphinx<8.0.0,>=7.2.5",
     "furo>=2023.8.19",
     "myst-parser>=2.0.0",
     "autodoc-pydantic>=2.0.1",
     "nptyping>=2.5.0",
     "sphinx-autobuild>=2021.3.14",
-    "nwb-linkml @ file:///${PROJECT_ROOT}/nwb_linkml",
-    "nwb-schema-language @ file:///${PROJECT_ROOT}/nwb_schema_language",
     "sphinx-design>=0.5.0",
     "sphinx-togglebutton>=0.3.2",
     "myst-nb @ git+https://github.com/executablebooks/MyST-NB.git",
diff --git a/nwb_linkml/pdm.lock b/nwb_linkml/pdm.lock
new file mode 100644
index 0000000..0328b01
--- /dev/null
+++ b/nwb_linkml/pdm.lock
@@ -0,0 +1,1836 @@
+# This file is @generated by PDM.
+# It is not intended for manual editing.
+
+[metadata]
+groups = ["default"]
+strategy = ["cross_platform", "inherit_metadata"]
+lock_version = "4.4.2"
+content_hash = "sha256:46c7731459553e929a84419fea83548ffe61846a9a0aabe8b0960b4f293a06f9"
+
+[[package]]
+name = "annotated-types"
+version = "0.7.0"
+requires_python = ">=3.8"
+summary = "Reusable constraint types to use with typing.Annotated"
+groups = ["default"]
+files = [
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+    {file = "annotated_types-0.7.0.tar.gz", hash = "sha256:aff07c09a53a08bc8cfccb9c85b05f1aa9a2a6f23728d790723543408344ce89"},
+]
+
+[[package]]
+name = "antlr4-python3-runtime"
+version = "4.9.3"
+summary = "ANTLR 4.9.3 runtime for Python 3.7"
+groups = ["default"]
+files = [
+    {file = "antlr4-python3-runtime-4.9.3.tar.gz", hash = "sha256:f224469b4168294902bb1efa80a8bf7855f24c99aef99cbefc1bcd3cce77881b"},
+]
+
+[[package]]
+name = "arrow"
+version = "1.3.0"
+requires_python = ">=3.8"
+summary = "Better dates & times for Python"
+groups = ["default"]
+dependencies = [
+    "python-dateutil>=2.7.0",
+    "types-python-dateutil>=2.8.10",
+]
+files = [
+    {file = "arrow-1.3.0-py3-none-any.whl", hash = "sha256:c728b120ebc00eb84e01882a6f5e7927a53960aa990ce7dd2b10f39005a67f80"},
+    {file = "arrow-1.3.0.tar.gz", hash = "sha256:d4540617648cb5f895730f1ad8c82a65f2dad0166f57b75f3ca54759c4d67a85"},
+]
+
+[[package]]
+name = "attrs"
+version = "23.2.0"
+requires_python = ">=3.7"
+summary = "Classes Without Boilerplate"
+groups = ["default"]
+files = [
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+]
+
+[[package]]
+name = "blosc2"
+version = "2.7.0"
+requires_python = "<4,>=3.10"
+summary = "Python wrapper for the C-Blosc2 library"
+groups = ["default"]
+dependencies = [
+    "msgpack",
+    "ndindex>=1.4",
+    "numexpr",
+    "numpy>=1.20.3",
+    "py-cpuinfo",
+]
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+[[package]]
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+requires_python = ">=3.6"
+summary = "Python package for providing Mozilla's CA Bundle."
+groups = ["default"]
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+groups = ["default"]
+dependencies = [
+    "rdflib>=0.4.2",
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+    {file = "wrapt-1.16.0-cp312-cp312-macosx_10_9_x86_64.whl", hash = "sha256:5eb404d89131ec9b4f748fa5cfb5346802e5ee8836f57d516576e61f304f3b7b"},
+    {file = "wrapt-1.16.0-cp312-cp312-macosx_11_0_arm64.whl", hash = "sha256:9090c9e676d5236a6948330e83cb89969f433b1943a558968f659ead07cb3b36"},
+    {file = "wrapt-1.16.0-cp312-cp312-manylinux_2_17_aarch64.manylinux2014_aarch64.whl", hash = "sha256:94265b00870aa407bd0cbcfd536f17ecde43b94fb8d228560a1e9d3041462d73"},
+    {file = "wrapt-1.16.0-cp312-cp312-manylinux_2_5_i686.manylinux1_i686.manylinux_2_17_i686.manylinux2014_i686.whl", hash = "sha256:f2058f813d4f2b5e3a9eb2eb3faf8f1d99b81c3e51aeda4b168406443e8ba809"},
+    {file = "wrapt-1.16.0-cp312-cp312-manylinux_2_5_x86_64.manylinux1_x86_64.manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:98b5e1f498a8ca1858a1cdbffb023bfd954da4e3fa2c0cb5853d40014557248b"},
+    {file = "wrapt-1.16.0-cp312-cp312-musllinux_1_1_aarch64.whl", hash = "sha256:14d7dc606219cdd7405133c713f2c218d4252f2a469003f8c46bb92d5d095d81"},
+    {file = "wrapt-1.16.0-cp312-cp312-musllinux_1_1_i686.whl", hash = "sha256:49aac49dc4782cb04f58986e81ea0b4768e4ff197b57324dcbd7699c5dfb40b9"},
+    {file = "wrapt-1.16.0-cp312-cp312-musllinux_1_1_x86_64.whl", hash = "sha256:418abb18146475c310d7a6dc71143d6f7adec5b004ac9ce08dc7a34e2babdc5c"},
+    {file = "wrapt-1.16.0-cp312-cp312-win32.whl", hash = "sha256:685f568fa5e627e93f3b52fda002c7ed2fa1800b50ce51f6ed1d572d8ab3e7fc"},
+    {file = "wrapt-1.16.0-cp312-cp312-win_amd64.whl", hash = "sha256:dcdba5c86e368442528f7060039eda390cc4091bfd1dca41e8046af7c910dda8"},
+    {file = "wrapt-1.16.0-py3-none-any.whl", hash = "sha256:6906c4100a8fcbf2fa735f6059214bb13b97f75b1a61777fcf6432121ef12ef1"},
+    {file = "wrapt-1.16.0.tar.gz", hash = "sha256:5f370f952971e7d17c7d1ead40e49f32345a7f7a5373571ef44d800d06b1899d"},
+]
+
+[[package]]
+name = "zipp"
+version = "3.19.2"
+requires_python = ">=3.8"
+summary = "Backport of pathlib-compatible object wrapper for zip files"
+groups = ["default"]
+marker = "python_version < \"3.12\""
+files = [
+    {file = "zipp-3.19.2-py3-none-any.whl", hash = "sha256:f091755f667055f2d02b32c53771a7a6c8b47e1fdbc4b72a8b9072b3eef8015c"},
+    {file = "zipp-3.19.2.tar.gz", hash = "sha256:bf1dcf6450f873a13e952a29504887c89e6de7506209e5b1bcc3460135d4de19"},
+]
diff --git a/nwb_linkml/src/nwb_linkml/io/hdf5.py b/nwb_linkml/src/nwb_linkml/io/hdf5.py
index 6abc0dc..65a353e 100644
--- a/nwb_linkml/src/nwb_linkml/io/hdf5.py
+++ b/nwb_linkml/src/nwb_linkml/io/hdf5.py
@@ -326,7 +326,7 @@ def truncate_file(source: Path, target: Optional[Path] = None, n:int=10) -> Path
 
     # use h5repack to actually remove the items from the dataset
     if shutil.which('h5repack') is None:
-        warnings.warn('Truncated file made, but since h5repack not found in path, file won't be any smaller')
+        warnings.warn("Truncated file made, but since h5repack not found in path, file won't be any smaller")
         return target
 
     print('Repacking hdf5...')