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Debug pysal import #568

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merged 1 commit into from
Jul 21, 2023
Merged

Debug pysal import #568

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10 changes: 5 additions & 5 deletions dynamo/tools/markers.py
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Original file line number Diff line number Diff line change
Expand Up @@ -79,7 +79,7 @@ def moran_i(
"""

try:
import pysal
from pysal import explore, lib
except ImportError:
raise ImportError(
"You need to install the package `pysal`."
Expand Down Expand Up @@ -118,9 +118,9 @@ def moran_i(
adj_dict = {i: row.indices for i, row in enumerate(neighbor_graph)}
if weighted:
weight_dict = {i: row.data for i, row in enumerate(neighbor_graph)}
W = pysal.lib.weights.W(adj_dict, weight_dict)
W = lib.weights.W(adj_dict, weight_dict)
else:
W = pysal.lib.weights.W(adj_dict)
W = lib.weights.W(adj_dict)

sparse = issparse(X_data)

Expand All @@ -133,7 +133,7 @@ def moran_i(
l_moran = np.zeros(X_data.shape)
for cur_g in tqdm(range(gene_num), desc="Moran’s I Global Autocorrelation Statistic"):
cur_X = X_data[:, cur_g].A if sparse else X_data[:, cur_g]
mbi = pysal.explore.esda.moran.Moran(cur_X, W, two_tailed=False)
mbi = explore.esda.moran.Moran(cur_X, W, two_tailed=False)

Moran_I[cur_g] = mbi.I
p_value[cur_g] = (
Expand All @@ -143,7 +143,7 @@ def moran_i(
mbi.z_sim if assumption == "permutation" else mbi.z_norm if assumption == "normality" else mbi.z_sim
)
if local_moran:
l_moran[:, cur_g] = pysal.explore.esda.moran.Moran_Local(cur_X, W).Is
l_moran[:, cur_g] = explore.esda.moran.Moran_Local(cur_X, W).Is

Moran_res = pd.DataFrame(
{
Expand Down