isorted a bunch of .py scripts.

naobservatory · Dec 4, 2023 · c8be21b · c8be21b
1 parent dd855d7
commit c8be21b
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Showing 8 changed files with 19 additions and 18 deletions.
diff --git a/figures/composite_fig_5.py b/figures/composite_fig_5.py
@@ -1,8 +1,7 @@
 #!/usr/bin/env python3
 
-from pathlib import Path
 import sys
-
+from pathlib import Path
 
 sys.path.append("..")
 

diff --git a/figures/composite_fig_6.py b/figures/composite_fig_6.py
@@ -4,9 +4,9 @@
 from dataclasses import dataclass
 
 import matplotlib.pyplot as plt  # type: ignore
+import numpy as np
 from matplotlib.lines import Line2D  # type: ignore
 from scipy.stats import gmean
-import numpy as np
 
 PERCENTILES = [5, 25, 50, 75, 95]
 

diff --git a/preprint_stats/cost_required_stat.py b/preprint_stats/cost_required_stat.py
@@ -2,8 +2,9 @@
 
 import csv
 from dataclasses import dataclass
-from scipy.stats import gmean
+
 import numpy as np
+from scipy.stats import gmean
 
 PERCENTILES = [5, 25, 50, 75, 95]
 

diff --git a/preprint_stats/family_percentage_stat.py b/preprint_stats/family_percentage_stat.py
@@ -1,17 +1,16 @@
-import os
 import gzip
 import json
+import os
 import subprocess
+
 import matplotlib.pyplot as plt  # type: ignore
-from matplotlib.gridspec import GridSpec
 import matplotlib.ticker as ticker
-
-import pandas as pd
-from scipy.stats import gmean
 import numpy as np
-from PIL import Image
+import pandas as pd
 import seaborn as sns
-
+from matplotlib.gridspec import GridSpec
+from PIL import Image
+from scipy.stats import gmean
 
 dashboard = os.path.expanduser("~/code/mgs-pipeline/dashboard/")
 

diff --git a/preprint_stats/preprint_stats.py b/preprint_stats/preprint_stats.py
@@ -1,10 +1,10 @@
-import os
 import json
+import os
 import subprocess
+
 import numpy as np
 from scipy.stats import gmean
 
-
 dashboard = os.path.expanduser("~/code/mgs-pipeline/dashboard/")
 
 with open(os.path.join(dashboard, "human_virus_sample_counts.json")) as inf:

diff --git a/preprint_stats/reads_required_stat.py b/preprint_stats/reads_required_stat.py
@@ -2,9 +2,9 @@
 
 import csv
 from dataclasses import dataclass
-from scipy.stats import gmean
 
 import numpy as np
+from scipy.stats import gmean
 
 PERCENTILES = [5, 25, 50, 75, 95]
 

diff --git a/preprint_stats/rothman_inter_site_comparison.py b/preprint_stats/rothman_inter_site_comparison.py
@@ -1,8 +1,9 @@
 import csv
+from collections import defaultdict
+from math import log
+
 import pandas as pd
 from scipy.stats import gmean
-from math import log
-from collections import defaultdict
 
 PERCENTILES = ["5%", "25%", "50%", "75%", "95%"]
 

diff --git a/preprint_stats/spurbeck_inter_site_comparison.py b/preprint_stats/spurbeck_inter_site_comparison.py
@@ -1,8 +1,9 @@
 import csv
+from collections import defaultdict
+from math import log
+
 import pandas as pd
 from scipy.stats import gmean
-from math import log
-from collections import defaultdict
 
 PERCENTILES = ["5%", "25%", "50%", "75%", "95%"]