From df51c3d028aecd1a3f98017b8f33e391a78c713b Mon Sep 17 00:00:00 2001
From: Daniel Kohler <11864045+ddkohler@users.noreply.github.com>
Date: Wed, 21 Feb 2024 13:29:23 -0600
Subject: [PATCH 1/8] troubleshoot render

---
 docs/cli.rst | 14 +++++++-------
 docs/conf.py |  2 +-
 2 files changed, 8 insertions(+), 8 deletions(-)

diff --git a/docs/cli.rst b/docs/cli.rst
index 1b576ff15..a257796bf 100644
--- a/docs/cli.rst
+++ b/docs/cli.rst
@@ -5,13 +5,13 @@ Command Line Interface (CLI)
 
 Most of the CLI interface is new as of v3.5.2 and under active depelopment.
 The commands here may change.
-Currently, there are two supported CLI calls to use:  `wt-convert`, and `wt5`.
-For usage hints, use the `--help` argument.
+Currently, there are two supported CLI calls to use:  ``wt-convert``, and ``wt5``.
+For usage hints, use the ``--help`` argument.
 
 wt-convert
 ----------
 
-Use `wt-convert`` to explore the WrightTools units system and the conversions of units.
+Use ``wt-convert`` to explore the WrightTools units system and the conversions of units.
 
 .. code-block:: shell
     > wt-units 1330 nm wn
@@ -27,7 +27,7 @@ wt5
 
 The wt5 command is meant to provide easy access to wt5 files and some basic wt5 properties.
 
-Use `wt5 glob` to quickly probe a folder for wt5s contained inside
+Use ``wt5 glob`` to quickly probe a folder for wt5s contained inside
 .. code-block:: shell
 
     > wt5 glob -d path/to/datasets
@@ -35,7 +35,7 @@ Use `wt5 glob` to quickly probe a folder for wt5s contained inside
     WrightTools\datasets\wt5\v1.0.0\perovskite_TA.wt5
     WrightTools\datasets\wt5\v1.0.1\MoS2_TrEE_movie.wt5
 
-Use `wt5 explore` to see details of wt5s within a folder, as the option of quick load a wt5.
+Use ``wt5 explore`` to see details of wt5s within a folder, as the option of quick load a wt5.
 .. code-block:: shell
 
     > wt5 explore -d path/to/data/folders
@@ -50,7 +50,7 @@ Use `wt5 explore` to see details of wt5s within a folder, as the option of quick
     Specify an index to load that entry. Use `t` to rerender table. Use no argument to exit.
     "
 
-Use `wt5 load` to quickly open an interactive python console with your wt5 data pre-loaded.
+Use ``wt5 load`` to quickly open an interactive python console with your wt5 data pre-loaded.
 .. code-block:: shell
     > wt5 load path\to\data_file.wt5
     --- INTERACTING --- (to continue, call exit() or quit())
@@ -60,7 +60,7 @@ Use `wt5 load` to quickly open an interactive python console with your wt5 data
     >>>
 
 
-Use `wt5 tree` to see a quick tree structure of a wt5 file.
+Use ``wt5 tree`` to see a quick tree structure of a wt5 file.
 
 .. code-block:: shell
     > wt5 tree path\to\data
diff --git a/docs/conf.py b/docs/conf.py
index fb46ac262..f76fc1050 100644
--- a/docs/conf.py
+++ b/docs/conf.py
@@ -86,7 +86,7 @@
 
 # General information about the project.
 project = "WrightTools"
-copyright = "2016-2019, WrightTools Developers"
+copyright = "2016-2024, WrightTools Developers"
 author = "WrightTools Developers"
 
 # The version info for the project you're documenting, acts as replacement for

From 65b334618837d0d9f02f785a31b6217615588b59 Mon Sep 17 00:00:00 2001
From: Daniel Kohler <11864045+ddkohler@users.noreply.github.com>
Date: Thu, 22 Feb 2024 10:17:33 -0600
Subject: [PATCH 2/8] Update conf.py

---
 docs/conf.py | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/docs/conf.py b/docs/conf.py
index f76fc1050..fcf19d6da 100644
--- a/docs/conf.py
+++ b/docs/conf.py
@@ -240,10 +240,10 @@ def reset_wt(gallery_conf, fname):
 
 
 sphinx_gallery_conf = {
-    "examples_dirs": "../examples",
+    "examples_dirs": ".\examples",
     "filename_pattern": "/*.py",
     "gallery_dirs": "auto_examples",
-    "download_section_examples": False,
+    # "download_section_examples": False,
     "backreferences_dir": os.path.join("gen_modules", "backreferences"),
     "reset_modules": ["matplotlib", reset_wt],
 }

From ea7f2c6c7eae2047a8e2dd050541fd11d51c9830 Mon Sep 17 00:00:00 2001
From: Daniel Kohler <11864045+ddkohler@users.noreply.github.com>
Date: Thu, 22 Feb 2024 10:32:56 -0600
Subject: [PATCH 3/8] Update conf.py

---
 docs/conf.py | 9 +++++----
 1 file changed, 5 insertions(+), 4 deletions(-)

diff --git a/docs/conf.py b/docs/conf.py
index fcf19d6da..cf27d6702 100644
--- a/docs/conf.py
+++ b/docs/conf.py
@@ -20,14 +20,15 @@
 import glob
 import os
 import sys
-import sphinx_gallery
+# import sphinx_gallery
 import math
+import pathlib
 
 
 # --- define -------------------------------------------------------------------------------------
 
 
-here = os.path.abspath(os.path.dirname(__file__))
+here = pathlib.Path(__file__).resolve().parent
 
 with open(os.path.join(os.path.dirname(here), "WrightTools", "VERSION")) as version_file:
     version = version_file.read().strip()
@@ -38,7 +39,7 @@
 # documentation root, use os.path.abspath to make it absolute, like shown here.
 
 sys.path.insert(0, os.path.abspath("."))
-sys.path.insert(0, os.path.abspath("../WrightTools"))
+sys.path.insert(0, here.parent / "WrightTools")
 
 
 # --- general configuration ----------------------------------------------------------------------
@@ -240,7 +241,7 @@ def reset_wt(gallery_conf, fname):
 
 
 sphinx_gallery_conf = {
-    "examples_dirs": ".\examples",
+    "examples_dirs": here.parent / "examples",
     "filename_pattern": "/*.py",
     "gallery_dirs": "auto_examples",
     # "download_section_examples": False,

From 213dd837cc0b4aa2c4aed172febdad1cb8c9dd9e Mon Sep 17 00:00:00 2001
From: Daniel Kohler <11864045+ddkohler@users.noreply.github.com>
Date: Thu, 22 Feb 2024 11:42:33 -0600
Subject: [PATCH 4/8] Update cli.rst

---
 docs/cli.rst | 6 ++----
 1 file changed, 2 insertions(+), 4 deletions(-)

diff --git a/docs/cli.rst b/docs/cli.rst
index a257796bf..d3ece400d 100644
--- a/docs/cli.rst
+++ b/docs/cli.rst
@@ -39,7 +39,6 @@ Use ``wt5 explore`` to see details of wt5s within a folder, as the option of qui
 .. code-block:: shell
 
     > wt5 explore -d path/to/data/folders
-    "
     ┏━━━┳━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━┳━━━━━━━━━━━┳━━━━━━━━━━━━━━━━━━━━━┳━━━━━━━━━━━━━━━┳━━━━━━━━━━━━━━┳━━━━━━━━━━━━━━━━━━━━━━━┳━━━━━━━━━━━┳━━━━━━━━━━┓
     ┃   ┃ path                                                ┃ size (MB) ┃ created             ┃ name          ┃ shape        ┃ axes                  ┃ variables ┃ channels ┃
     ┡━━━╇━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━╇━━━━━━━━━━━╇━━━━━━━━━━━━━━━━━━━━━╇━━━━━━━━━━━━━━━╇━━━━━━━━━━━━━━╇━━━━━━━━━━━━━━━━━━━━━━━╇━━━━━━━━━━━╇━━━━━━━━━━┩
@@ -48,10 +47,10 @@ Use ``wt5 explore`` to see details of wt5s within a folder, as the option of qui
     │ 2 │ WrightTools\datasets\wt5\v1.0.1\MoS2_TrEE_movie.wt5 │    2.3    │ 2018-06-11 16:41:47 │ _001_dat      │ (41, 41, 23) │ ('w2', 'w1=wm', 'd2') │ 7         │ 6        │
     └───┴─────────────────────────────────────────────────────┴───────────┴─────────────────────┴───────────────┴──────────────┴───────────────────────┴───────────┴──────────┘
     Specify an index to load that entry. Use `t` to rerender table. Use no argument to exit.
-    "
 
 Use ``wt5 load`` to quickly open an interactive python console with your wt5 data pre-loaded.
 .. code-block:: shell
+
     > wt5 load path\to\data_file.wt5
     --- INTERACTING --- (to continue, call exit() or quit())
     >>> import WrightTools as wt
@@ -63,11 +62,10 @@ Use ``wt5 load`` to quickly open an interactive python console with your wt5 dat
 Use ``wt5 tree`` to see a quick tree structure of a wt5 file.
 
 .. code-block:: shell
+
     > wt5 tree path\to\data
-    "
     / (...\felu75fe.wt5) (25, 256)
     ├── axes (2): w2 (wn), w2-wa (wn)
     ├── constants (0):
     └── channels (1): array_signal
-    "
 

From e05b489da1462ed74bbb09766eb7fde53da8c63e Mon Sep 17 00:00:00 2001
From: Daniel Kohler <11864045+ddkohler@users.noreply.github.com>
Date: Thu, 22 Feb 2024 12:50:56 -0600
Subject: [PATCH 5/8] Update cli.rst

---
 docs/cli.rst | 5 ++++-
 1 file changed, 4 insertions(+), 1 deletion(-)

diff --git a/docs/cli.rst b/docs/cli.rst
index d3ece400d..a88e8202d 100644
--- a/docs/cli.rst
+++ b/docs/cli.rst
@@ -27,7 +27,8 @@ wt5
 
 The wt5 command is meant to provide easy access to wt5 files and some basic wt5 properties.
 
-Use ``wt5 glob`` to quickly probe a folder for wt5s contained inside
+Use ``wt5 glob`` to quickly probe a folder for wt5s contained inside.
+
 .. code-block:: shell
 
     > wt5 glob -d path/to/datasets
@@ -36,6 +37,7 @@ Use ``wt5 glob`` to quickly probe a folder for wt5s contained inside
     WrightTools\datasets\wt5\v1.0.1\MoS2_TrEE_movie.wt5
 
 Use ``wt5 explore`` to see details of wt5s within a folder, as the option of quick load a wt5.
+
 .. code-block:: shell
 
     > wt5 explore -d path/to/data/folders
@@ -49,6 +51,7 @@ Use ``wt5 explore`` to see details of wt5s within a folder, as the option of qui
     Specify an index to load that entry. Use `t` to rerender table. Use no argument to exit.
 
 Use ``wt5 load`` to quickly open an interactive python console with your wt5 data pre-loaded.
+
 .. code-block:: shell
 
     > wt5 load path\to\data_file.wt5

From a5969ca6d767bfb1713809d13b06513574b8d4af Mon Sep 17 00:00:00 2001
From: Daniel Kohler <11864045+ddkohler@users.noreply.github.com>
Date: Thu, 22 Feb 2024 14:07:56 -0600
Subject: [PATCH 6/8] Update conf.py

---
 docs/conf.py | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/docs/conf.py b/docs/conf.py
index cf27d6702..70aa40751 100644
--- a/docs/conf.py
+++ b/docs/conf.py
@@ -30,7 +30,7 @@
 
 here = pathlib.Path(__file__).resolve().parent
 
-with open(os.path.join(os.path.dirname(here), "WrightTools", "VERSION")) as version_file:
+with open(here.parent / "WrightTools" / "VERSION") as version_file:
     version = version_file.read().strip()
 
 
@@ -244,7 +244,7 @@ def reset_wt(gallery_conf, fname):
     "examples_dirs": here.parent / "examples",
     "filename_pattern": "/*.py",
     "gallery_dirs": "auto_examples",
-    # "download_section_examples": False,
+    "download_section_examples": False,
     "backreferences_dir": os.path.join("gen_modules", "backreferences"),
     "reset_modules": ["matplotlib", reset_wt],
 }

From 45072a71c6c07472570b937ca979bbc780f2e9a0 Mon Sep 17 00:00:00 2001
From: Daniel Kohler <11864045+ddkohler@users.noreply.github.com>
Date: Thu, 22 Feb 2024 14:13:45 -0600
Subject: [PATCH 7/8] Update conf.py

---
 docs/conf.py | 1 -
 1 file changed, 1 deletion(-)

diff --git a/docs/conf.py b/docs/conf.py
index 70aa40751..50c9289f8 100644
--- a/docs/conf.py
+++ b/docs/conf.py
@@ -244,7 +244,6 @@ def reset_wt(gallery_conf, fname):
     "examples_dirs": here.parent / "examples",
     "filename_pattern": "/*.py",
     "gallery_dirs": "auto_examples",
-    "download_section_examples": False,
     "backreferences_dir": os.path.join("gen_modules", "backreferences"),
     "reset_modules": ["matplotlib", reset_wt],
 }

From 594db634b624127ae75fad6d856467589eb0de63 Mon Sep 17 00:00:00 2001
From: "pre-commit-ci[bot]"
 <66853113+pre-commit-ci[bot]@users.noreply.github.com>
Date: Thu, 22 Feb 2024 20:22:09 +0000
Subject: [PATCH 8/8] [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci
---
 docs/conf.py | 1 +
 1 file changed, 1 insertion(+)

diff --git a/docs/conf.py b/docs/conf.py
index 50c9289f8..eb57526a0 100644
--- a/docs/conf.py
+++ b/docs/conf.py
@@ -20,6 +20,7 @@
 import glob
 import os
 import sys
+
 # import sphinx_gallery
 import math
 import pathlib