A bug on using protein family

[chao1224]

Hi,

I'm testing the dataset curated from protein family, e.g., configs/curators/sbap_core_ki_protein_family.py. And I get the following exception:

Traceback (most recent call last):
  File "xxx/drugood/apis/curate.py", line 14, in curate_data
    data = curator.data_splitting(data)
  File "xxx/drugood/curators/curator.py", line 206, in data_splitting
    domain_value = domain_func(value_for_generating_domain)
  File "xxx/drugood/curators/get_domain_info.py", line 75, in protein_family
    class_id = self.protein_family_getter(protein_seq)
  File "xxx/drugood/curators/chembl/protein_family.py", line 48, in __call__
    target_level_class_id = self.get_target_level_class_id(class_id)
  File "xxx/drugood/curators/chembl/protein_family.py", line 37, in get_target_level_class_id
    class_id_cur_level = self.dict_id_to_parent_level[class_id_cur_level][0]
KeyError: None

It turns out that protein_family_level is None.

---

A quick update: this line fails to pass in the protein_family_level.

[Tigerrr07]

I also have the same question, so I debug for that, the problem comes from the following code lines:

DrugOOD/drugood/curators/curator.py

Lines 198 to 200 in 61a70e4

	domain_cfg = self.cfg.domain
	domain_info_funcs_set = DomainInfo(self.cfg, self.sql)

It should be modified to this:

domain_cfg = self.cfg.domain

domain_info_funcs_set = DomainInfo(domain_cfg, self.sql)

This is because DomainInfo needs to accept domain_cfg instead of the original cfg. By doing that, I can generate the dataset curated from protein family successfully.