diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml
index 96d95547..2f663d72 100644
--- a/.pre-commit-config.yaml
+++ b/.pre-commit-config.yaml
@@ -25,7 +25,7 @@ repos:
     -   id: autopep8
         args: [-i]
 -   repo: https://github.com/PyCQA/isort
-    rev: 5.10.1
+    rev: 5.12.0
     hooks:
     -   id: isort
 -   repo: https://github.com/asottile/yesqa
diff --git a/VERSION.txt b/VERSION.txt
index 781dcb07..65087b4f 100644
--- a/VERSION.txt
+++ b/VERSION.txt
@@ -1 +1 @@
-1.1.3
+1.1.4
diff --git a/docs/source/api.rst b/docs/source/api.rst
index 17e1eca1..60c9efa2 100644
--- a/docs/source/api.rst
+++ b/docs/source/api.rst
@@ -183,6 +183,7 @@ Some parts of metrics can be used individually, these are listed below.
 .. autosummary::
     :toctree: api/
 
+    cluster_optimal_resolution
     lisi_graph
     pcr
     pc_regression
diff --git a/scib/_package_tools.py b/scib/_package_tools.py
index 05e4509d..2744e951 100644
--- a/scib/_package_tools.py
+++ b/scib/_package_tools.py
@@ -16,6 +16,7 @@ def wrapper(*args, **kwargs):
             f"Mixed case function naming is deprecated for '{name}'. "
             f"Please use '{func.__name__}' instead.",
             DeprecationWarning,
+            stacklevel=2,
         )
         return func(*args, **kwargs)
 
diff --git a/scib/integration.py b/scib/integration.py
index a2f8b237..b7afe37e 100644
--- a/scib/integration.py
+++ b/scib/integration.py
@@ -418,7 +418,7 @@ def combat(adata, batch):
     return adata_int
 
 
-def desc(adata, batch, res=0.8, ncores=None, tmp_dir=None, use_gpu=False):
+def desc(adata, batch, res=0.8, ncores=None, tmp_dir=None, use_gpu=False, gpu_id=None):
     """DESC wrapper function
 
     Based on `desc package <https://github.com/eleozzr/desc>`_ version 2.0.3.
@@ -457,6 +457,7 @@ def desc(adata, batch, res=0.8, ncores=None, tmp_dir=None, use_gpu=False):
         save_dir=tmp_dir,
         do_tsne=False,
         use_GPU=use_gpu,
+        GPU_id=gpu_id,
         num_Cores=ncores,
         use_ae_weights=False,
         do_umap=False,
diff --git a/scib/metrics/clustering.py b/scib/metrics/clustering.py
index bcb63366..61685370 100644
--- a/scib/metrics/clustering.py
+++ b/scib/metrics/clustering.py
@@ -40,7 +40,7 @@ def cluster_optimal_resolution(
         Will be overwritten if exists and ``force=True``
     :param cluster_function: a clustering function that takes an anndata.Anndata object. Default: Leiden clustering
     :param metric: function that computes the cost to be optimised over. Must take as
-        arguments ``(adata, group1, group2, **kwargs)`` and returns a number for maximising
+        arguments ``(adata, label_key, cluster_key, **metric_kwargs)`` and returns a number for maximising
         Default is :func:`~scib.metrics.nmi()`
     :param resolutions: list of resolutions to be optimised over. If ``resolutions=None``,
         default resolutions of 10 values ranging between 0.1 and 2 will be used
diff --git a/scib/metrics/lisi.py b/scib/metrics/lisi.py
index 79166db1..748001d4 100644
--- a/scib/metrics/lisi.py
+++ b/scib/metrics/lisi.py
@@ -172,7 +172,7 @@ def clisi_graph(
 
     """
     if batch_key is not None:
-        warnings.warn("'batch_key' is deprecated and will be ignore")
+        warnings.warn("'batch_key' is deprecated and will be ignore", stacklevel=1)
 
     check_adata(adata)
     check_batch(label_key, adata.obs)
@@ -304,7 +304,6 @@ def lisi_graph_py(
         print("LISI score estimation")
 
     if n_cores > 1:
-
         if verbose:
             print(f"{n_cores} processes started.")
         pool = mp.Pool(processes=n_cores)
@@ -448,10 +447,13 @@ def compute_simpson_index_graph(
         return lists
 
     # read distances and indices with nan value handling
-    indices = pd.read_table(index_file, index_col=0, header=None, sep=",")
+    header = ["index"] + list(range(1, n_neighbors + 1))
+    indices = pd.read_table(index_file, index_col=0, header=None, sep=",", names=header)
     indices = indices.T
 
-    distances = pd.read_table(distance_file, index_col=0, header=None, sep=",")
+    distances = pd.read_table(
+        distance_file, index_col=0, header=None, sep=",", names=header
+    )
     distances = distances.T
 
     # get cell ids
diff --git a/scib/metrics/pcr.py b/scib/metrics/pcr.py
index 42a0264d..a61277ea 100644
--- a/scib/metrics/pcr.py
+++ b/scib/metrics/pcr.py
@@ -194,7 +194,7 @@ def pc_regression(
 
         if verbose:
             print("compute PCA")
-        pca = sc.tl.pca(
+        X_pca, _, _, pca_var = sc.tl.pca(
             matrix,
             n_comps=n_comps,
             use_highly_variable=False,
@@ -202,9 +202,6 @@ def pc_regression(
             svd_solver=svd_solver,
             copy=True,
         )
-        X_pca = pca[0].copy()
-        pca_var = pca[3].copy()
-        del pca
     else:
         X_pca = matrix
         n_comps = matrix.shape[1]
diff --git a/setup.cfg b/setup.cfg
index 77e68a3f..dc521b52 100644
--- a/setup.cfg
+++ b/setup.cfg
@@ -1,5 +1,5 @@
 [bumpversion]
-current_version = 1.1.3
+current_version = 1.1.4
 commit = True
 tag = True
 
@@ -46,7 +46,7 @@ packages =
 python_requires = >=3.7
 install_requires = 
 	numpy
-	pandas
+	pandas<2
 	seaborn
 	matplotlib
 	numba