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Identical blocks of code found in 2 locations. Consider refactoring.
Open

        for level in range(levels):
            cur_id = ancestor_ids[-(level+1)]

            if level == 0:
                common_ancestors = ancestor_ids
Severity: Major
Found in datanator_query_python/query/query_protein.py and 1 other location - About 2 days to fix
datanator_query_python/query/query_protein.py on lines 523..543

Duplicated Code

Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

Tuning

This issue has a mass of 237.

We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

Refactorings

Further Reading

Identical blocks of code found in 2 locations. Consider refactoring.
Open

        for level in range(levels):
            cur_id = ancestor_ids[-(level+1)]

            if level == 0:
                common_ancestors = ancestor_ids
Severity: Major
Found in datanator_query_python/query/query_protein.py and 1 other location - About 2 days to fix
datanator_query_python/query/query_protein.py on lines 803..823

Duplicated Code

Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

Tuning

This issue has a mass of 237.

We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

Refactorings

Further Reading

File query_protein.py has 898 lines of code (exceeds 250 allowed). Consider refactoring.
Open

from datanator_query_python.util import mongo_util, file_util
from datanator_query_python.query import query_taxon_tree, query_kegg_orthology
from pymongo.collation import Collation, CollationStrength
from pymongo import ASCENDING
from collections import deque
Severity: Major
Found in datanator_query_python/query/query_protein.py - About 2 days to fix

    Identical blocks of code found in 2 locations. Consider refactoring.
    Open

    class DefineSchema(cement.Controller):
    """Karrlab elasticsearch delete index. """

    class Meta:
        label = 'mongo-def-schema'
    Severity: Major
    Found in datanator_query_python/__main__.py and 1 other location - About 1 day to fix
    datanator_query_python/__main__.py on lines 68..102

    Duplicated Code

    Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

    Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

    When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

    Tuning

    This issue has a mass of 183.

    We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

    The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

    If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

    See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

    Refactorings

    Further Reading

    Identical blocks of code found in 2 locations. Consider refactoring.
    Open

    class DefineSchema(cement.Controller):
    """Karrlab elasticsearch delete index. """

    class Meta:
        label = 'mongo-def-schema'
    Severity: Major
    Found in datanator_query_python/__main__.py and 1 other location - About 1 day to fix
    datanator_query_python/__main__.py on lines 31..65

    Duplicated Code

    Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

    Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

    When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

    Tuning

    This issue has a mass of 183.

    We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

    The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

    If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

    See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

    Refactorings

    Further Reading

    Identical blocks of code found in 4 locations. Consider refactoring.
    Open

            if dof == 0:
            substrates = substrates
            products = products
        elif dof == 1:
            substrates = [re.compile('^' + x[:-2]) for x in substrates]
    Severity: Major
    Found in datanator_query_python/query/query_sabiork_old.py and 3 other locations - About 1 day to fix
    datanator_query_python/query/query_sabio_reaction_entries.py on lines 41..49
    datanator_query_python/query/query_sabiork_old.py on lines 110..118
    datanator_query_python/query/query_sabiork_old.py on lines 195..203

    Duplicated Code

    Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

    Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

    When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

    Tuning

    This issue has a mass of 156.

    We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

    The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

    If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

    See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

    Refactorings

    Further Reading

    Identical blocks of code found in 4 locations. Consider refactoring.
    Open

            if dof == 0:
            substrates = substrates
            products = products
        elif dof == 1:
            substrates = [re.compile('^' + x[:-2]) for x in substrates]
    Severity: Major
    Found in datanator_query_python/query/query_sabio_reaction_entries.py and 3 other locations - About 1 day to fix
    datanator_query_python/query/query_sabiork_old.py on lines 110..118
    datanator_query_python/query/query_sabiork_old.py on lines 148..156
    datanator_query_python/query/query_sabiork_old.py on lines 195..203

    Duplicated Code

    Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

    Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

    When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

    Tuning

    This issue has a mass of 156.

    We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

    The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

    If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

    See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

    Refactorings

    Further Reading

    Identical blocks of code found in 4 locations. Consider refactoring.
    Open

            if dof == 0:
            substrates = substrates
            products = products
        elif dof == 1:
            substrates = [re.compile('^' + x[:-2]) for x in substrates]
    Severity: Major
    Found in datanator_query_python/query/query_sabiork_old.py and 3 other locations - About 1 day to fix
    datanator_query_python/query/query_sabio_reaction_entries.py on lines 41..49
    datanator_query_python/query/query_sabiork_old.py on lines 110..118
    datanator_query_python/query/query_sabiork_old.py on lines 148..156

    Duplicated Code

    Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

    Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

    When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

    Tuning

    This issue has a mass of 156.

    We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

    The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

    If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

    See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

    Refactorings

    Further Reading

    Identical blocks of code found in 4 locations. Consider refactoring.
    Open

            if dof == 0:
            substrates = substrates
            products = products
        elif dof == 1:
            substrates = [re.compile('^' + x[:-2]) for x in substrates]
    Severity: Major
    Found in datanator_query_python/query/query_sabiork_old.py and 3 other locations - About 1 day to fix
    datanator_query_python/query/query_sabio_reaction_entries.py on lines 41..49
    datanator_query_python/query/query_sabiork_old.py on lines 148..156
    datanator_query_python/query/query_sabiork_old.py on lines 195..203

    Duplicated Code

    Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

    Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

    When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

    Tuning

    This issue has a mass of 156.

    We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

    The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

    If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

    See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

    Refactorings

    Further Reading

    Similar blocks of code found in 2 locations. Consider refactoring.
    Open

        def get_info_by_ko(self, ko):
        '''
            Find all proteins with the same kegg orthology id.

            Args:
    Severity: Major
    Found in datanator_query_python/query/query_protein.py and 1 other location - About 1 day to fix
    datanator_query_python/query/query_protein.py on lines 1026..1048

    Duplicated Code

    Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

    Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

    When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

    Tuning

    This issue has a mass of 136.

    We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

    The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

    If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

    See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

    Refactorings

    Further Reading

    Similar blocks of code found in 2 locations. Consider refactoring.
    Open

        def get_info_by_orthodb(self, orthodb):
        '''
            Find all proteins with the same kegg orthology id.

            Args:
    Severity: Major
    Found in datanator_query_python/query/query_protein.py and 1 other location - About 1 day to fix
    datanator_query_python/query/query_protein.py on lines 298..320

    Duplicated Code

    Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

    Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

    When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

    Tuning

    This issue has a mass of 136.

    We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

    The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

    If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

    See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

    Refactorings

    Further Reading

    Identical blocks of code found in 2 locations. Consider refactoring.
    Open

            for doc in docs:
            ko_number = doc.get('ko_number', 'no number')
            ko_name = doc.get('ko_name', ['no name'])
            uniprot_id = doc['uniprot_id']
            index = self.file_manager.search_dict_index(result, 'ko_number', ko_number)
    Severity: Major
    Found in datanator_query_python/query/query_protein.py and 1 other location - About 1 day to fix
    datanator_query_python/query/query_protein.py on lines 255..264

    Duplicated Code

    Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

    Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

    When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

    Tuning

    This issue has a mass of 124.

    We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

    The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

    If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

    See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

    Refactorings

    Further Reading

    Identical blocks of code found in 2 locations. Consider refactoring.
    Open

            for doc in docs:
            ko_number = doc.get('ko_number', 'no number')
            ko_name = doc.get('ko_name', ['no name'])
            uniprot_id = doc['uniprot_id']
            index = self.file_manager.search_dict_index(result, 'ko_number', ko_number)
    Severity: Major
    Found in datanator_query_python/query/query_protein.py and 1 other location - About 1 day to fix
    datanator_query_python/query/query_protein.py on lines 190..199

    Duplicated Code

    Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

    Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

    When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

    Tuning

    This issue has a mass of 124.

    We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

    The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

    If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

    See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

    Refactorings

    Further Reading

    Similar blocks of code found in 2 locations. Consider refactoring.
    Open

        def __init__(self, username=None, password=None, server=None, authSource='admin',
                 database='datanator', max_entries=float('inf'), verbose=True, collection_str='corum',
                 readPreference='nearest', replicaSet=None):
        self.mongo_manager = mongo_util.MongoUtil(MongoDB=server, username=username,
                                             password=password, authSource=authSource, db=database,
    Severity: Major
    Found in datanator_query_python/query/query_corum.py and 1 other location - About 7 hrs to fix
    datanator_query_python/query/query_intact_complex.py on lines 8..17

    Duplicated Code

    Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

    Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

    When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

    Tuning

    This issue has a mass of 119.

    We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

    The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

    If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

    See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

    Refactorings

    Further Reading

    Similar blocks of code found in 2 locations. Consider refactoring.
    Open

        def __init__(self, username=None, password=None, server=None, authSource='admin',
                 database='datanator', max_entries=float('inf'), verbose=True, collection_str='intact_complex',
                 readPreference='nearest', replicaSet=None):
        self.mongo_manager = mongo_util.MongoUtil(MongoDB=server, username=username,
                                             password=password, authSource=authSource, db=database,
    Severity: Major
    Found in datanator_query_python/query/query_intact_complex.py and 1 other location - About 7 hrs to fix
    datanator_query_python/query/query_corum.py on lines 8..17

    Duplicated Code

    Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

    Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

    When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

    Tuning

    This issue has a mass of 119.

    We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

    The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

    If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

    See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

    Refactorings

    Further Reading

    Function inchi_to_inchikey has a Cognitive Complexity of 41 (exceeds 5 allowed). Consider refactoring.
    Open

        def inchi_to_inchikey(self, szINCHISource):
        '''
            fork from git@github.com:mnowotka/chembl_ikey.git
        '''
        flagstd = 'S'
    Severity: Minor
    Found in datanator_query_python/util/chem_util.py - About 6 hrs to fix

    Cognitive Complexity

    Cognitive Complexity is a measure of how difficult a unit of code is to intuitively understand. Unlike Cyclomatic Complexity, which determines how difficult your code will be to test, Cognitive Complexity tells you how difficult your code will be to read and comprehend.

    A method's cognitive complexity is based on a few simple rules:

    • Code is not considered more complex when it uses shorthand that the language provides for collapsing multiple statements into one
    • Code is considered more complex for each "break in the linear flow of the code"
    • Code is considered more complex when "flow breaking structures are nested"

    Further reading

    Similar blocks of code found in 2 locations. Consider refactoring.
    Open

    def base26_triplet_3(a):
    b0 = a[3] & 0xf0
    b1 = a[4]
    b2 = a[5] & 0x03
    h = (b0 | b1 << 8 | b2 << 16) >> 4
    Severity: Major
    Found in datanator_query_python/util/base26.py and 1 other location - About 5 hrs to fix
    datanator_query_python/util/base26.py on lines 19..24

    Duplicated Code

    Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

    Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

    When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

    Tuning

    This issue has a mass of 95.

    We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

    The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

    If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

    See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

    Refactorings

    Further Reading

    Similar blocks of code found in 2 locations. Consider refactoring.
    Open

    def base26_triplet_2(a):
    b0 = a[1] & 0xc0
    b1 = a[2]
    b2 = a[3] & 0x0f
    h = (b0 | b1 << 8 | b2 << 16) >> 6
    Severity: Major
    Found in datanator_query_python/util/base26.py and 1 other location - About 5 hrs to fix
    datanator_query_python/util/base26.py on lines 27..32

    Duplicated Code

    Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

    Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

    When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

    Tuning

    This issue has a mass of 95.

    We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

    The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

    If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

    See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

    Refactorings

    Further Reading

    File query_taxon_tree.py has 398 lines of code (exceeds 250 allowed). Consider refactoring.
    Open

    from datanator_query_python.util import mongo_util, chem_util, file_util
from datanator_query_python.aggregate import pipelines
import os
import json
from pymongo.collation import Collation, CollationStrength
    Severity: Minor
    Found in datanator_query_python/query/query_taxon_tree.py - About 5 hrs to fix

      File query_sabiork_old.py has 379 lines of code (exceeds 250 allowed). Consider refactoring.
      Open

      from datanator_query_python.util import mongo_util, chem_util, file_util
from datanator_query_python.aggregate import lookups
from pymongo.collation import Collation, CollationStrength
from . import query_taxon_tree, query_sabio_compound
import json
      Severity: Minor
      Found in datanator_query_python/query/query_sabiork_old.py - About 5 hrs to fix
        Severity
        Category
        Status
        Source
        Language