[6cf5c7]: / tools / __pycache__ / tabtools.cpython-39.pyc

Download this file

36 lines (36 with data), 7.9 kB

a

™Ï˜e-ã@sªddlZddlZddlZddlZddlZddlZddlZdd„Zdd„Z	dd„Z
dd	„Zd
d„Ze
dkrŠeƒZee d
¡ƒee 	d¡ƒee 	d¡ƒee 
d¡ƒdS)éNcCsJddddddddd	d
ddd
dddddœ}t ||¡}d |j ¡¡}|S)NzF/localscratch/yzhuang43/ra-llm/MedTool/ehrsql/mimic_iii/ADMISSIONS.csvzG/localscratch/yzhuang43/ra-llm/MedTool/ehrsql/mimic_iii/CHARTEVENTS.csvz@/localscratch/yzhuang43/ra-llm/MedTool/ehrsql/mimic_iii/COST.csvzK/localscratch/yzhuang43/ra-llm/MedTool/ehrsql/mimic_iii/D_ICD_DIAGNOSES.csvzL/localscratch/yzhuang43/ra-llm/MedTool/ehrsql/mimic_iii/D_ICD_PROCEDURES.csvzC/localscratch/yzhuang43/ra-llm/MedTool/ehrsql/mimic_iii/D_ITEMS.csvzF/localscratch/yzhuang43/ra-llm/MedTool/ehrsql/mimic_iii/D_LABITEMS.csvzI/localscratch/yzhuang43/ra-llm/MedTool/ehrsql/mimic_iii/DIAGNOSES_ICD.csvzD/localscratch/yzhuang43/ra-llm/MedTool/ehrsql/mimic_iii/ICUSTAYS.csvzJ/localscratch/yzhuang43/ra-llm/MedTool/ehrsql/mimic_iii/INPUTEVENTS_CV.csvzE/localscratch/yzhuang43/ra-llm/MedTool/ehrsql/mimic_iii/LABEVENTS.csvzN/localscratch/yzhuang43/ra-llm/MedTool/ehrsql/mimic_iii/MICROBIOLOGYEVENTS.csvzH/localscratch/yzhuang43/ra-llm/MedTool/ehrsql/mimic_iii/OUTPUTEVENTS.csvzD/localscratch/yzhuang43/ra-llm/MedTool/ehrsql/mimic_iii/PATIENTS.csvzI/localscratch/yzhuang43/ra-llm/MedTool/ehrsql/mimic_iii/PRESCRIPTIONS.csvzJ/localscratch/yzhuang43/ra-llm/MedTool/ehrsql/mimic_iii/PROCEDURES_ICD.csvzE/localscratch/yzhuang43/ra-llm/MedTool/ehrsql/mimic_iii/TRANSFERS.csv)Z
admissionsZcharteventsÚcostZd_icd_diagnosesZd_icd_proceduresZd_itemsZ
d_labitemsZ
diagnoses_icdZicustaysZinputevents_cvZ	labeventsÚmicrobiologyeventsZoutputeventsZpatientsZ
prescriptionsZprocedures_icdZ	transfersú, )ÚpdÚread_csvÚjoinÚcolumnsÚtolist)Z
target_ehrZehr_dictÚdataÚcolumn_names©rúE/localscratch/yzhuang43/ra-llm/MedTool/AutoGen-beta/tools/tabtools.pyÚ	db_loaders*ðrc	Csè|}| d¡}tt|ƒƒD]Æ}zzd||vrŒ|| d¡}|d}|d}zt||dƒ|ƒ}Wn|}Yn0||||k}nd||vrô|| d¡}|d}|d}zt||dƒ|ƒ}Wn|}Yn0||||k}nŠd||vr^|| d¡}|d}|d}zt||dƒ|ƒ}Wn|}Yn0||||k}n<d||vrð|| d¡}|d}|d}|ddksŠ|dd	kr²|dd
…}zt||dƒ|ƒ}Wn|}Yn0||||k}nªd||vrŠ|| d¡}|d}|d}|ddks8|dd	krD|dd
…}z || ¡d}t|ƒ|ƒ}Wn|}Yn0||||k}nd||vr|| d¡}|d}|d}d
d„| d¡ d¡Dƒ}	dd„|	Dƒ}	ttt||dƒ|	ƒƒ}	||| |	¡}nŽd||vrT|| d¡}|d d¡d}||||| 	¡k}nFd||vrš|| d¡}|d d¡d}||||| 
¡k}Wnf||j ¡vrØd |j ¡¡}
t
d |||
¡ƒ‚|dksì|dkrþt
d ||¡ƒ‚Yn0t|ƒdkrtt|| ¡ƒƒ}d||vrÚ||vrÚd||vrÚd||vrÚi}|D]}
t t|
ƒt|ƒ¡||
<q`t| ¡dd„dd}dd„|dd …Dƒ}d d!d„|Dƒ¡}t
d" |||||¡ƒ‚q|Sq|S)#Nz||z>=réz<=ú>ú<ú'ú"éÿÿÿÿú=z in cSsg|]}| ¡‘qSr©Ústrip©Ú.0Úsrrr
Ú
<listcomp>fózdata_filter.<locals>.<listcomp>z[]ú,cSsg|]}| d¡ d¡‘qS)rrrrrrr
rgrÚmaxzmax(ú)Úminzmin(rz’The filtering query {} is incorrect. Please modify the column name or use LoadDB to read another table. The column names in the current DB are {}.Úz‹The filtering query {} is incorrect. There is syntax error in the command. Please modify the condition or use LoadDB to read another table.cSs|dS)Nrr)Úxrrr
Ú<lambda>…rzdata_filter.<locals>.<lambda>F)ÚkeyÚreversecSsg|]}|d‘qS)rr©rÚirrr
r†récSsg|]}t|ƒ‘qSr©Ústrr&rrr
r‡rz The filtering query {} is incorrect. There is no {} value in the column. Five example values in the column are {}. Please check if you get the correct {} value.)ÚsplitÚrangeÚlenÚtyper	rÚlistÚmapÚisinrr rrÚ	ExceptionÚformatÚsetÚLevenshteinÚdistancer*ÚsortedÚitems)r
ÚargumentZbackup_dataÚcommandsr'ÚcommandZcolumn_nameÚvalueZexamplarÚ
value_listrÚ
column_valuesZlevenshtein_distÚcvrrr
Údata_filter"s°





4
r@cCsLz| d¡}t|ƒdkrŒ|}|ddks6|ddkrD|dd…}q|ddks\|ddkrj|dd…}qDt|ƒdkrŠt|jd|ƒWStt|| ¡ƒƒ}dd	„|Dƒ}d |¡WSn\|d}d
|dvrþ|| ¡}dd	„|Dƒ}t|ƒt|ƒWSd|dvrP|| ¡}zd
d	„|Dƒ}Wndd	„|Dƒ}Yn0t	|ƒWSd|dvr¢|| ¡}zdd	„|Dƒ}Wndd	„|Dƒ}Yn0t
|ƒWSd|dvrÔ|| ¡}dd	„|Dƒ}t|ƒWSd|dvr|| ¡}dd	„|Dƒ}t|ƒWStd |d¡ƒ‚Wn,d |j
 ¡¡}td ||¡ƒ‚Yn0dS)Nrrrú[rrú]cSsg|]}t|ƒ‘qSrr)r&rrr
ršrzget_value.<locals>.<listcomp>ÚmeancSsg|]}t|ƒ‘qSr©Úfloatr&rrr
r¢rrcSsg|]}t|ƒ‘qSrrDr&rrr
r§rcSsg|]}t|ƒ‘qSrr)r&rrr
r©rr cSsg|]}t|ƒ‘qSrrDr&rrr
r®rcSsg|]}t|ƒ‘qSrr)r&rrr
r°rÚsumcSsg|]}t|ƒ‘qSrrDr&rrr
rŽrr/cSsg|]}t|ƒ‘qSrr)r&rrr
ržrzDThe operation {} contains syntax errors. Please check the arguments.zThe column name {} is incorrect. Please check the column name and make necessary changes. The columns in this table include {}.)r+r-r*Úilocr/r4r	rrFrr r2r3r)r
r9r:ÚcolumnZanswer_listZres_listr>rrr
Ú	get_valuesX




rIcCs$t d¡}| ¡}| |¡ ¡}|S)NúD/localscratch/yzhuang43/ra-llm/MedTool/ehrsql/mimic_iii/mimic_iii.db)Úsqlite3ÚconnectÚcursorÚexecuteÚfetchall)r;ÚconÚcurÚresultsrrr
Úsql_interpreterÀs
rScCsVz6t d¡}| ¡}d |¡}| |¡ ¡dd}Wntd |¡ƒ‚Yn0|S)NrJz#select datetime(current_time, '{}')rz—The date calculator {} is incorrect. Please check the syntax and make necessary changes. For the current date and time, please call Calendar('0 year').)rKrLrMr3rNrOr2)r9rPrQr;rRrrr
Údate_calculatorÆs

rTÚ__main__rzHADM_ID=107655z+SPEC_TYPE_DESC=peripheral blood lymphocytesZ	CHARTTIME)ÚpandasrZ	jsonlinesÚjsonÚrerKÚsysr5rr@rIrSrTÚ__name__Ztable_toolkitsÚdbÚprintrrrr
Ú<module>s"k3