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columns.py
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columns.py
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from antihistamine.meta.foods import GROUPS
ATHENA_COLUMN = "Athena ID"
NAME_COLUMN = 'Name'
WEIGHT_COLUMN = 'f_weight'
AGE_COLUMN = 'age'
META_COLUMNS = [
NAME_COLUMN,
WEIGHT_COLUMN,
AGE_COLUMN
]
FLAG_COLUMN_SCORES = "__scores"
FLAG_COLUMN_TESTS = "__tests"
FLAG_COLUMN_ENDOTYPE = "__endotype"
FLAG_COLUMN_FDS = "__fds"
FLAG_COLUMN_FDV = "__fdv"
FLAG_COLUMNS = [
FLAG_COLUMN_SCORES,
FLAG_COLUMN_TESTS,
FLAG_COLUMN_ENDOTYPE,
FLAG_COLUMN_FDS,
FLAG_COLUMN_FDV
]
ENDOTYPE_COLUMN = "Endotype"
TESTS_COLUMNS = [
"almond_ige",
"coconut_ige",
"peanut_ige",
"pecan_ige",
"sesame_ige",
"hazelnut_ige",
"cashew_ige",
"brazilnut_ige",
"pine_nut_ige",
"walnut_ige",
"pistachio_ige",
"macadamia_ige",
"sweet_chestnut_ige",
"pumpkin_ige",
"sunflower_ige",
"poppy_ige",
"mustard_ige",
"linseed_ige_flax",
"chickpea_ige",
"lentil_ige",
"black_beans_ige",
"pinto_beans_ige",
"kidney_beans_ige",
"navy_beans_ige",
"rape_seed_ige",
"lima_beans_ige",
"soy_ige",
"green_pea_ige",
"cow_milk_ige",
"boiled_cow_milk_ige",
"goat_milk_ige",
"sheep_milk_ige",
"mare_milk_ige",
"beef_ige",
"egg_white_ige",
"egg_yolk_ige",
"chicken_ige",
"wheat_ige",
"barley_ige",
"rye_ige",
"buckwheat_ige",
"white_rice_ige",
"oat_ige",
"peach_ige",
"pineapple",
"apple_ige",
"mango",
"avocado",
"banana",
"kiwi_ige",
"celery_ige",
"cod_ige",
"lobster_ige",
"shrimp_ige",
"crab_ige",
"salmon_ige",
"catfish_ige",
"scallop_ige",
"clam_ige",
"tuna_ige",
"halibut_ige",
"red_snapper",
"tilapia_ige",
"oyster_ige",
"turkey_ige",
"cultivated_wheat_ige",
"potato_ige",
"tomato_ige",
"common_millet_ige",
"quinoa_ige",
"corn_ige",
"cockroach_ige",
"white_mulberry_ige",
"johnson_grass_ige",
"mouse_urine_protein_ige",
"dermatophagoides_pteronyssinus_ige",
"dermatophagoides_farinae_ige",
"penicillium_chrysogenum_ige",
"cladosporium_herbarum_ige",
"aspergillus_fumigatus_ige",
"alternaria_alernata_ige",
"alder_tree_ige",
"red_cedar_ige",
"olive_tree_ige",
"walnut_tree_ige",
"cottonwood_ige",
"common_ragweed_ige",
"mugwort_ige",
"russian_thistle_ige",
"common_pigweed_ige",
"cat_dander_ige",
"dog_dander_ige",
"oak_tree_ige",
"elm_tree_ige",
"bermuda_grass_ige",
"timothy_grass_ige",
"mucor_racemosus_ige",
"candida_albicans_ige",
"mountain_juniper_ige",
"peanut_spt",
"walnut_spt",
"almond_spt",
"brazilnut_spt",
"cashew_spt",
"hazelnut_spt",
"coconut_spt",
"pecan_spt",
"green_pea_spt",
"pine_nut_spt",
"macadamia_spt",
"pistachio_spt",
"sesame_spt",
"chickpea_spt",
"lentil_spt",
"pumpkin_spt",
"sunflower_spt",
"mustard_spt",
"soy_spt",
"positive_control",
"negative_control",
"mango_spt",
"banana_spt",
"avocado_spt",
"pineapple_spt",
"cow_milk_spt",
"boiled_cow_milk_spt",
"goat_milk_spt",
"boiled_goat_milk_spt",
"beef_spt",
"egg_white_spt",
"egg_yolk_spt",
"chicken_spt",
"wheat_spt",
"barley_spt",
"rye_spt",
"oat_spt",
"white_rice_spt",
"buckwheat_spt",
"poppy_spt",
"chia_spt",
"linseed_spt_flax",
"black_beans_spt",
"pinto_beans_spt",
"navy_beans_spt",
"lima_beans_spt",
"kidney_beans_spt",
"cod_spt",
"lobster_spt",
"shrimp_spt",
"crab_spt",
"salmon_spt",
"catfish_spt",
"scallop_spt",
"clam_spt",
"tuna_spt",
"strawberry_spt",
"pru_p_1_ige",
"pru_p_3_ige",
"pru_p_4_ige",
"rmald_1_ige",
"rmal_d_3_ige",
"act_d_8_ige",
"api_g_1_01_ige",
"ber_e_1_ige",
"cor_a_1_ige",
"cor_a_8_ige",
"rcor_a_9_ige",
"ncor_a_14_ige",
"ana_o_3_ige",
"jug_r_1_ige",
"jug_r_3_ige",
"gly_m_4_ige",
"ngly_m_5_ige",
"ngly_m_6_ige",
"r_tri_a_14_ige",
"tri_a_19_ige",
"pen_a_1_ige",
"gad_c_1_ige",
"cyp_c_1_ige",
"gal_d_1_ige",
"gal_d_2_ige",
"gal_d_3_ige",
"bos_d_4_ige",
"bos_d_5_ige",
"bos_d_8_ige",
"cyn_d_1_ige",
"phl_p_1_ige",
"phl_p_2_ige",
"phl_p_6_ige",
"phl_p_7_ige",
"phl_p_12_ige",
"phl_p_5b_ige",
"amb_a_1_ige",
"art_v_1_ige",
"art_v_3_ige",
"bet_v_1_ige",
"bet_v_2_ige",
"bet_v_4_ige",
"bet_v_6_ige",
"ole_e_1_ige",
"ole_e_7_ige",
"role_e9_ige",
"alt_a_1_ige",
"asp_0_21_ige",
"can_f_1_ige",
"can_f_2_ige",
"can_f_3_ige",
"can_f_5_ige",
"fel_d_1_ige",
"fel_d_2_ige",
"fel_d_4_cat_ige",
"equ_c_1_ige",
"der_p_1_ige",
"der_p_2_ige",
"der_p_10_ige",
"arah_1",
"arah_2",
"arah_3",
"arah_8",
"arah_9",
"peanut_igg4",
"egg_white_igg4",
"sesame_igg4",
"almond_igg4",
"hazelnut_igg4",
"pistachio_igg4",
"cashew_igg4",
"pecan_igg4",
"milk_igg4",
"walnut_igg4",
"egg_yolk_igg4",
"uib",
"cyt",
"ige",
"eos",
"igg",
"igg_subclass1",
"igg_subclass2",
"igg_subclass3",
"igg_subclass4",
"igg_total"
]
SCORING_COLUMNS = [
'Sesame',
'Beans',
'Chickpea',
'Pea',
'Lentils',
'Almond',
'Peanut',
'Hazelnut',
'Soy',
'Buffalo milk',
'Beef',
'Mare milk',
'Camel milk',
'Cow milk',
'Goat milk',
'Quinoa',
'Corn',
'Rye',
'Rice',
'Oat',
'Buckwheat',
'Barley',
'Wheat',
'Dark tuna',
'Tuna',
'Carp',
'Red fish',
'White fish',
'Oyster',
'Clam',
'Scallop',
'Crab',
'Shrimp',
'Lobster',
'Mollusk',
'Shellfish',
'Turkey',
'Chicken',
'Egg yolk',
'Egg white',
'Mustard',
'Chia',
'Poppy',
'Flax',
'Sunflower',
'Pumpkin',
'Macadamia',
'Pistachio',
'Cashew',
'Coconut',
'Chestnut',
'Pine nut',
'Brazil nut',
'Pecan',
'Walnut'
]
NAME_ADDON_DOSE_REQ = ' dosing required'
NAME_ADDON_CHALLENGE_AMOUNT = ' challenge amount'
NAME_ADDON_DOSE_CAPPED = ' dose capped'
NAME_ADDON_DOSE_MICRO = ' dose micro'
NAME_ADDON_DOSE_VISITS = ' dose visits'
NAME_ADDON_DOSE_VECTOR = ' dose vector'
NAME_ADDON_FOOD_SPAN = ' span'
NAME_ADDON_GROUP_SPAN = ' span'
DOSE_REQ_COLUMNS = [sc + NAME_ADDON_DOSE_REQ for sc in SCORING_COLUMNS]
DOSE_CAPPED_COLUMNS = [sc + NAME_ADDON_DOSE_CAPPED for sc in SCORING_COLUMNS]
DOSE_MICRO_COLUMNS = [sc + NAME_ADDON_DOSE_MICRO for sc in SCORING_COLUMNS]
DOSE_VECTOR_COLUMNS = [sc + NAME_ADDON_DOSE_VECTOR for sc in SCORING_COLUMNS]
FOOD_SPAN_COLUMNS = [sc + NAME_ADDON_FOOD_SPAN for sc in SCORING_COLUMNS]
GROUP_SPAN_COLUMNS = [g + NAME_ADDON_FOOD_SPAN for g in GROUPS]
RECOMMENDED_FOODS_COLUMN = 'recommended_foods'
MAINTENANCE_FOODS_COLUMN = 'maintenance_foods'
TREATMENT_FOODS_COLUMN = 'treatment_foods'
LAUNCH_VISIT_GROUPS_COLUMN = 'launch_visit_groups'
FDS_META_COLUMNS = [RECOMMENDED_FOODS_COLUMN, MAINTENANCE_FOODS_COLUMN, TREATMENT_FOODS_COLUMN]
FDS_COLUMNS = DOSE_REQ_COLUMNS + DOSE_CAPPED_COLUMNS + DOSE_MICRO_COLUMNS \
+ DOSE_VECTOR_COLUMNS + FOOD_SPAN_COLUMNS \
+ GROUP_SPAN_COLUMNS + FDS_META_COLUMNS
COLUMNS = [ATHENA_COLUMN] + FLAG_COLUMNS + META_COLUMNS + [ENDOTYPE_COLUMN] + TESTS_COLUMNS + SCORING_COLUMNS\
+ DOSE_REQ_COLUMNS + DOSE_CAPPED_COLUMNS + DOSE_MICRO_COLUMNS\
+ DOSE_VECTOR_COLUMNS + FOOD_SPAN_COLUMNS + GROUP_SPAN_COLUMNS + FDS_META_COLUMNS
ENDOTYPE_PREDICTION_COLUMNS = [ATHENA_COLUMN] + META_COLUMNS + [ENDOTYPE_COLUMN] + TESTS_COLUMNS
SCORING_PREDICTION_COLUMNS = [ATHENA_COLUMN] + META_COLUMNS + [ENDOTYPE_COLUMN] + TESTS_COLUMNS + SCORING_COLUMNS
FDS_PREDICTION_COLUMNS = [ATHENA_COLUMN] + META_COLUMNS + [ENDOTYPE_COLUMN] + TESTS_COLUMNS + SCORING_COLUMNS\
+ DOSE_REQ_COLUMNS + DOSE_CAPPED_COLUMNS + DOSE_MICRO_COLUMNS \
+ DOSE_VECTOR_COLUMNS + FOOD_SPAN_COLUMNS\
+ GROUP_SPAN_COLUMNS + FDS_META_COLUMNS