skip S3 tests on CI

bed_reader/_open_bed.py

@@ -227,23 +227,23 @@ class open_bed:
 
     .. doctest::
 
-        >>> from bed_reader import open_bed
+        >>> from bed_reader import open_bed  # doctest: +SKIP
         >>>
         >>> # Somehow, get your AWS credentials
-        >>> import configparser, os
-        >>> config = configparser.ConfigParser()
-        >>> _ = config.read(os.path.expanduser("~/.aws/credentials"))
+        >>> import configparser, os  # doctest: +SKIP
+        >>> config = configparser.ConfigParser()  # doctest: +SKIP
+        >>> _ = config.read(os.path.expanduser("~/.aws/credentials"))  # doctest: +SKIP
 
         >>> # Create a dictionary with your AWS credentials and the AWS region.
-        >>> cloud_options = {
-        ...     "aws_access_key_id": config["default"].get("aws_access_key_id"),
-        ...     "aws_secret_access_key": config["default"].get("aws_secret_access_key"),
-        ...     "aws_region": "us-west-2"}
+        >>> cloud_options = {  # doctest: +SKIP
+        ...     "aws_access_key_id": config["default"].get("aws_access_key_id"),  # doctest: +SKIP
+        ...     "aws_secret_access_key": config["default"].get("aws_secret_access_key"),  # doctest: +SKIP
+        ...     "aws_region": "us-west-2"}  # doctest: +SKIP
 
         >>> # Open the bed file with a URL and any needed cloud options, then use as before.
-        >>> with open_bed("s3://bedreader/v1/toydata.5chrom.bed", cloud_options=cloud_options) as bed:
-        ...     val = bed.read(np.s_[:10, :10])
-        ...     assert val[0, 0] == 1.0
+        >>> with open_bed("s3://bedreader/v1/toydata.5chrom.bed", cloud_options=cloud_options) as bed:  # doctest: +SKIP
+        ...     val = bed.read(np.s_[:10, :10])  # doctest: +SKIP
+        ...     assert val[0, 0] == 1.0  # doctest: +SKIP
 
     """
 

bed_reader/tests/test_open_bed_cloud.py

@@ -929,11 +929,14 @@ def load_aws_credentials(profile_name="default"):
     :param profile_name: Name of the profile to load. Defaults to 'default'.
     :return: A dictionary with 'aws_access_key_id' and 'aws_secret_access_key'.
     """
-    aws_credentials_file = os.path.expanduser("~/.aws/credentials")
+    aws_credentials_file = os.path.expanduser("~/cmk.aws/credentials")
 
     config = configparser.ConfigParser()
     config.read(aws_credentials_file)
 
+    if profile_name in config:
+        return None
+
     credentials = config[profile_name]
     return {
         "aws_access_key_id": credentials.get("aws_access_key_id"),
@@ -957,6 +960,9 @@ def test_s3(shared_datadir):
 
     # s3 url sans format check
     aws_credentials = load_aws_credentials()
+    if aws_credentials is None:
+        print("No AWS credentials found. Skipping test_s3.")
+        return
     aws_credentials["aws_region"] = "us-west-2"
     url = "s3://bedreader/v1/toydata.5chrom.bed"
     with open_bed(url, cloud_options=aws_credentials, skip_format_check=True) as bed:
@@ -974,6 +980,10 @@ def test_s3_example():
     config = configparser.ConfigParser()
     _ = config.read(os.path.expanduser("~/.aws/credentials"))
 
+    if "default" not in config:
+        print("No AWS credentials found. Skipping test_s3_example.")
+        return
+
     # Create a dictionary with your AWS credentials and the AWS region.
     cloud_options = {
         "aws_access_key_id": config["default"].get("aws_access_key_id"),