From 089a8c2c4b4dc5f462261c0a3ea81e4c58cca1ce Mon Sep 17 00:00:00 2001
From: Patrick Kunzmann <padix.key@gmail.com>
Date: Sat, 24 Aug 2024 13:47:24 +0200
Subject: [PATCH] Update benchmark

---
 benchmark.py   |   4 +-
 benchmark.svg  | 594 ++++++++++++++++++++-----------------------------
 pyproject.toml |   3 +
 3 files changed, 244 insertions(+), 357 deletions(-)

diff --git a/benchmark.py b/benchmark.py
index 1c2c043..0e1ed86 100644
--- a/benchmark.py
+++ b/benchmark.py
@@ -5,8 +5,8 @@
 import matplotlib.ticker as ticker
 import numpy as np
 import biotite.database.rcsb as rcsb
-import biotite.structure.info as info
 import biotite.structure.io.pdb as pdb
+from biotite.structure.info.ccd import get_ccd
 import fastpdb
 
 
@@ -17,7 +17,7 @@
 
 # Call this function before the benchmark
 # to avoid a bias due to the initial loading time
-info.bond_dataset()
+get_ccd()
 
 
 pdb_file_path = rcsb.fetch(PDB_ID, "pdb", tempfile.gettempdir())
diff --git a/benchmark.svg b/benchmark.svg
index 53526aa..b8f7d39 100644
--- a/benchmark.svg
+++ b/benchmark.svg
@@ -1,23 +1,23 @@
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  </g>
  <defs>
-  <clipPath id="pdde81a6178">
-   <rect height="243.2" width="501.865" x="61.175" y="12.96"/>
+  <clipPath id="pade42b46ff">
+   <rect x="53.615" y="12.96" width="509.425" height="243.2"/>
   </clipPath>
  </defs>
 </svg>
diff --git a/pyproject.toml b/pyproject.toml
index 8ebd919..7f90794 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -34,6 +34,9 @@ test = [
     "pytest",
     "pytest-codspeed",
 ]
+plot = [
+    "matplotlib",
+]
 
 [project.urls]
 homepage = "https://github.com/biotite-dev/fastpdb"