Seems not to be working with Python 3.X and newer version of pandas

[gfbischof]

"from gdsctools import ANOVA, ic50_test
gdsc = ANOVA(ic50_test)
gdsc.set_cancer_type('breast')
df = gdsc.anova_one_drug_one_feature(1047, 'TP53_mut', show=True)"

-->

"ImportError Traceback (most recent call last)
Input In [1], in <cell line: 1>()
----> 1 from gdsctools import ANOVA, ic50_test
2 gdsc = ANOVA(ic50_test)
3 gdsc.set_cancer_type('breast')

File ~/opt/anaconda3/lib/python3.9/site-packages/gdsctools/init.py:54, in
51 return filename
53 from gdsctools.readers import IC50, GenomicFeatures, DrugDecode, Reader
---> 54 from gdsctools.anova import ANOVA
55 from gdsctools.anova_report import ANOVAReport
56 from gdsctools.anova_results import ANOVAResults

File ~/opt/anaconda3/lib/python3.9/site-packages/gdsctools/anova.py:24, in
21 import pylab
22 import numpy as np
---> 24 from statsmodels.formula.api import OLS
26 from easydev import Progress, AttrDict, do_profile
28 from gdsctools.models import BaseModels

ImportError: cannot import name 'OLS' from 'statsmodels.formula.api' (/Users/xxxx/opt/anaconda3/lib/python3.9/site-packages/statsmodels/formula/api.py)
"

Even renamen OSL to osl in the file won't work -->

"Input In [6], in <cell line: 2>()
1 from gdsctools import ANOVA, ic50_test
----> 2 gdsc = ANOVA(ic50_test)
3 gdsc.set_cancer_type('breast')
4 df = gdsc.anova_one_drug_one_feature(1047, 'TP53_mut', show=True)

File ~/opt/anaconda3/lib/python3.9/site-packages/gdsctools/anova.py:124, in ANOVA.init(self, ic50, genomic_features, drug_decode, verbose, set_media_factor)
103 def init(self, ic50, genomic_features=None,
104 drug_decode=None, verbose=True,
105 set_media_factor=False):
106 """.. rubric:: Constructor
107
108 :param DataFrame IC50: a dataframe with the IC50. Rows should be
(...)
122 to the ANOVA analysis or visualisation.
123 """
--> 124 super(ANOVA, self).init(ic50, genomic_features,
125 drug_decode=drug_decode, verbose=verbose,
126 set_media_factor=set_media_factor)
128 self.sampling = 0
129 self.pvalues_features = {}

File ~/opt/anaconda3/lib/python3.9/site-packages/gdsctools/models.py:109, in BaseModels.init(self, ic50, genomic_features, drug_decode, verbose, set_media_factor)
102 if len(unknowns) > 0 and self.verbose:
103 print("WARNING: " +
104 "%s cosmic identifiers in your IC50 " % len(unknowns) +
105 "could not be found in the genomic feature matrix. " +
106 "They will be dropped. Consider using a user-defined " +
107 "genomic features matrix")
--> 109 self.ic50.drop_cosmic(list(unknowns))
110 self.features.cosmicIds = self.ic50.cosmicIds
111 #self.cosmicIds = self.ic50.cosmicIds
112
113 #: an instance of :class:~gdsctools.settings.ANOVASettings

File ~/opt/anaconda3/lib/python3.9/site-packages/gdsctools/readers.py:325, in CosmicRows.drop_cosmic(self, cosmics)
323 cosmics = easydev.to_list(cosmics)
324 tokeep = [x for x in self.cosmicIds if x not in cosmics]
--> 325 self.cosmicIds = tokeep

File ~/opt/anaconda3/lib/python3.9/site-packages/gdsctools/readers.py:317, in CosmicRows._set_cosmic(self, cosmics)
315 if cosmic not in self.cosmicIds:
316 raise ValueError('Unknown cosmic identifier')
--> 317 self.df = self.df.ix[cosmics]

File ~/opt/anaconda3/lib/python3.9/site-packages/pandas/core/generic.py:5575, in NDFrame.getattr(self, name)
5568 if (
5569 name not in self._internal_names_set
5570 and name not in self._metadata
5571 and name not in self._accessors
5572 and self._info_axis._can_hold_identifiers_and_holds_name(name)
5573 ):
5574 return self[name]
-> 5575 return object.getattribute(self, name)

AttributeError: 'DataFrame' object has no attribute 'ix'"