Feature/compressed io

pyproject.toml

@@ -49,6 +49,7 @@ dependencies = [
     "requests>=2.0",
     "matplotlib>=3.4",
     "seaborn>=0.10",
+    "xopen>=2.0.2",
 ]
 
 [project.urls]
@@ -116,4 +117,4 @@ markers = [
 
 [tool.isort]
 skip = ["__init__.py", "benchmarks/env"]
-profile = "black"
+profile = "black"

xgi/readwrite/bipartite.py

@@ -1,5 +1,7 @@
 """Read from and write to bipartite formats."""
 
+from xopen import xopen
+
 from ..exception import XGIError
 from ..generators import empty_hypergraph
 
@@ -111,7 +113,7 @@ def read_bipartite_edgelist(
     >>> # H = xgi.read_bipartite_edgelist("test.csv", delimiter=",")
 
     """
-    with open(path, "rb") as file:
+    with xopen(path, "rb") as file:
         lines = (
             line if isinstance(line, str) else line.decode(encoding) for line in file
         )

xgi/readwrite/edgelist.py

@@ -1,5 +1,7 @@
 """Read from and write to edgelists."""
 
+from xopen import xopen
+
 from ..generators import empty_hypergraph
 
 __all__ = [
@@ -98,7 +100,7 @@ def read_edgelist(
     >>> # H = xgi.read_edgelist("test.csv", delimiter=",")
 
     """
-    with open(path, "rb") as file:
+    with xopen(path, "rb") as file:
         lines = (
             line if isinstance(line, str) else line.decode(encoding) for line in file
         )

xgi/readwrite/hif.py

@@ -8,6 +8,8 @@
 from collections import defaultdict
 from os.path import dirname, join
 
+from xopen import xopen
+
 from ..convert import from_hif_dict, to_hif_dict
 from ..exception import XGIError
 
@@ -99,7 +101,7 @@ def read_hif(path, nodetype=None, edgetype=None):
     A Hypergraph, SimplicialComplex, or DiHypergraph object
         The loaded network
     """
-    with open(path) as file:
+    with xopen(path) as file:
         data = json.loads(file.read())
 
     return from_hif_dict(data, nodetype=nodetype, edgetype=edgetype)