KarrLab/datanator

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NameLines of codeMaintainabilityTest coverage
datanator/core/__init__.py0
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datanator/data_source/__init__.py0
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datanator/data_source/array_express_tools/__init__.py1
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datanator/data_source/array_express_tools/ensembl_tools.py234
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datanator/data_source/builds/__init__.py0
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datanator/data_source/builds/full.py14
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datanator/data_source/builds/med.py13
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datanator/data_source/builds/test.py13
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datanator/data_source/builds/test_log.py11
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datanator/data_source/modomics.py222
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datanator/data_source/process_rna_seq/__init__.py2
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datanator/data_source/process_rna_seq/command_line_core.py117
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datanator/data_source/process_rna_seq/core.py114
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datanator/data_source/process_rna_seq/download_cdna.py33
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datanator/data_source/sabio_compound.py63
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datanator/data_source/sabio_rk_json_mongo.py652
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datanator/data_source/sqlite_to_json.py47
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datanator/parse_metabolite_concentration.py54
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datanator/schema_2/__init__.py0
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datanator/schema_2/migrate_corum.py68
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datanator/schema_2/migrate_ec.py64
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datanator/schema_2/migrate_metabolite_concentration.py72
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datanator/schema_2/migrate_metabolites_meta.py82
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datanator/schema_2/migrate_taxon_tree.py96
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datanator/schema_2/migrate_uniprot.py89
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datanator/util/build_util.py48
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datanator/schema_2/transform_metabolites_meta.py235
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3 days
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12%
datanator/data_source/protein_aggregate.py212
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2 days
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datanator/data_source/metabolite_concentration/doi_10_1038_nchembio_2077.py347
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6 days
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datanator/util/calc_tanimoto.py196
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datanator/util/index_collection.py131
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datanator/data_source/metabolite_nosql.py118
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datanator/data_source/rna_halflife/order_by_ko.py202
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2 days
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datanator/data_source/rna_halflife/doi_10_1093_nar_gkt1150.py99
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datanator/data_source/rna_halflife/doi_10_1371_journal_pone_0059059.py115
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datanator/data_source/gene_ortholog.py176
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2 days
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datanator/schema_2/transform.py462
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4 days
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datanator/data_source/uniprot_nosql.py301
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3 days
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datanator/data_source/kegg_orthology.py238
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2 days
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datanator/elasticsearch_kl/batch_load.py238
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4 days
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datanator/data_source/metabolites_meta_collection.py244
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5 days
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37%
datanator/data_source/kegg_org_code.py146
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datanator/core/data_source.py480
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2 days
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datanator/util/rna_halflife_util.py122
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datanator/data_source/kegg_reaction_class.py170
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3 days
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datanator/config/core.py55
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datanator/data_source/sabio_reaction.py214
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1 day
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datanator/data_source/ec.py104
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4 hrs
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datanator/util/mongo_util.py67
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1 hr
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datanator/data_source/rna_halflife/doi_10_1093_nar_gks1019.py126
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2 days
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60%