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[MAINT]: updated the old cogent3 function LoadTable to make_table #3

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[MAINT]: updated the old cogent3 function LoadTable to make_table #3

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4 changes: 2 additions & 2 deletions mutation_origin/batch.py
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Original file line number Diff line number Diff line change
Expand Up @@ -10,7 +10,7 @@
import click
import pandas
from tqdm import tqdm
from cogent3 import LoadTable
from cogent3 import make_table
from cogent3.util import parallel
from mutation_origin.cli import (sample_data as mutori_sample,
lr_train as mutori_lr_train,
Expand Down Expand Up @@ -556,7 +556,7 @@ def collate(base_path, output_path, exclude_paths, overwrite):

columns = sorted(keys)
rows = list(map(lambda r: [r.get(c, None) for c in columns], records))
table = LoadTable(header=columns, rows=rows)
table = make_table(header=columns, data=rows)
table = table.sorted(reverse="auc")
table = table.with_new_column("name",
lambda x: model_name_from_features(*x),
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4 changes: 2 additions & 2 deletions mutation_origin/util.py
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Original file line number Diff line number Diff line change
Expand Up @@ -8,7 +8,7 @@
import numpy
from tqdm import tqdm
from cogent3.util.misc import open_, get_format_suffixes
from cogent3 import LoadTable
from cogent3 import make_table


__author__ = 'Gavin Huttley'
Expand Down Expand Up @@ -241,7 +241,7 @@ def summary_stat_table(table, factors):
for col in fscore_cols:
header.extend([f'mean_{col}', f'std_{col}'])

table = LoadTable(header=header, rows=rows)
table = make_table(header=header, data=rows)
table = table.sorted(reverse='mean_auc')
return table

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