DEV: fix logging names

metagentools · Aug 16, 2024 · e33d12c · e33d12c
1 parent 031ae13
commit e33d12c
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Showing 5 changed files with 41 additions and 5 deletions.
diff --git a/src/metacoag/metacoag_runner.py b/src/metacoag/metacoag_runner.py
@@ -69,7 +69,7 @@ def run(args):
     # Setup logger
     # ------------------------------------------------------------------------
 
-    logger = logging.getLogger("MetaCoaAG 1.2.1")
+    logger = logging.getLogger(f"MetaCoaAG {__version__}")
     logger.setLevel(logging.DEBUG)
     logging.captureWarnings(True)
     formatter = logging.Formatter("%(asctime)s - %(levelname)s - %(message)s")

diff --git a/src/metacoag/metacoag_utils/feature_utils.py b/src/metacoag/metacoag_utils/feature_utils.py
@@ -11,8 +11,17 @@
 import numpy as np
 from Bio import SeqIO
 
+__author__ = "Vijini Mallawaarachchi and Yu Lin"
+__copyright__ = "Copyright 2020, MetaCoAG Project"
+__license__ = "GPL-3.0"
+__version__ = "1.2.1"
+__maintainer__ = "Vijini Mallawaarachchi"
+__email__ = "vijini.mallawaarachchi@anu.edu.au"
+__status__ = "Stable Release"
+
+
 # Create logger
-logger = logging.getLogger("MetaCoaAG 1.2.1")
+logger = logging.getLogger(f"MetaCoaAG {__version__}")
 
 # Set complements of each nucleotide
 complements = {"A": "T", "C": "G", "G": "C", "T": "A"}

diff --git a/src/metacoag/metacoag_utils/label_prop_utils.py b/src/metacoag/metacoag_utils/label_prop_utils.py
@@ -9,8 +9,17 @@
 
 MAX_WEIGHT = sys.float_info.max
 
+__author__ = "Vijini Mallawaarachchi and Yu Lin"
+__copyright__ = "Copyright 2020, MetaCoAG Project"
+__license__ = "GPL-3.0"
+__version__ = "1.2.1"
+__maintainer__ = "Vijini Mallawaarachchi"
+__email__ = "vijini.mallawaarachchi@anu.edu.au"
+__status__ = "Stable Release"
+
+
 # create logger
-logger = logging.getLogger("MetaCoaAG 1.2.1")
+logger = logging.getLogger(f"MetaCoaAG {__version__}")
 
 
 class DataWrap:

diff --git a/src/metacoag/metacoag_utils/marker_gene_utils.py b/src/metacoag/metacoag_utils/marker_gene_utils.py
@@ -4,8 +4,17 @@
 import os
 import pathlib
 
+__author__ = "Vijini Mallawaarachchi and Yu Lin"
+__copyright__ = "Copyright 2020, MetaCoAG Project"
+__license__ = "GPL-3.0"
+__version__ = "1.2.1"
+__maintainer__ = "Vijini Mallawaarachchi"
+__email__ = "vijini.mallawaarachchi@anu.edu.au"
+__status__ = "Stable Release"
+
+
 # create logger
-logger = logging.getLogger("MetaCoaAG 1.2.1")
+logger = logging.getLogger(f"MetaCoaAG {__version__}")
 
 
 # Modified from SolidBin

diff --git a/src/metacoag/metacoag_utils/matching_utils.py b/src/metacoag/metacoag_utils/matching_utils.py
@@ -8,14 +8,23 @@
 import networkx as nx
 from scipy.spatial import distance
 
+__author__ = "Vijini Mallawaarachchi and Yu Lin"
+__copyright__ = "Copyright 2020, MetaCoAG Project"
+__license__ = "GPL-3.0"
+__version__ = "1.2.1"
+__maintainer__ = "Vijini Mallawaarachchi"
+__email__ = "vijini.mallawaarachchi@anu.edu.au"
+__status__ = "Stable Release"
+
+
 # Constants set from MaxBin 2.0
 MU_INTRA, SIGMA_INTRA = 0, 0.01037897 / 2
 MU_INTER, SIGMA_INTER = 0.0676654, 0.03419337
 VERY_SMALL_DOUBLE = 1e-10
 MAX_WEIGHT = sys.float_info.max
 
 # create logger
-logger = logging.getLogger("MetaCoaAG 1.2.1")
+logger = logging.getLogger(f"MetaCoaAG {__version__}")
 
 
 def normpdf(x, mean, sd):