§
    šŠtj�  ã                   ó¦   — d dl Z d dlZd dlZd dlZd dlZd dlZd dlmZm	Z	m
Z
mZ d dlmZ d dlmZmZ  ej        e¦  «        Z G d„ de¦  «        ZdS )é    N)ÚAnyÚDictÚIteratorÚList)ÚDocument)Ú	BaseModelÚmodel_validatorc                   ó˜  — e Zd ZU dZeed<   dZeed<   dZeed<   dZ	e
ed<   d	Zeed
<   dZe
ed<   dZe
ed<   dZe
ed<   dZeed<   dZeed<    ed¬¦  «        ededefd„¦   «         ¦   «         Zdedefd„Zdedee         fd„Zdedee         fd„Zdedefd„Zdedee         fd „Zdedee         fd!„Zd"ed#edefd$„Z d"ed%edefd&„Z!d'S )(ÚPubMedAPIWrapperah  
    Wrapper around PubMed API.

    This wrapper will use the PubMed API to conduct searches and fetch
    document summaries. By default, it will return the document summaries
    of the top-k results of an input search.

    Parameters:
        top_k_results: number of the top-scored document used for the PubMed tool
        MAX_QUERY_LENGTH: maximum length of the query.
            Default is 300 characters.
        doc_content_chars_max: maximum length of the document content.
            Content will be truncated if it exceeds this length.
            Default is 2000 characters.
        max_retry: maximum number of retries for a request. Default is 5.
        sleep_time: time to wait between retries.
            Default is 0.2 seconds.
        email: email address to be used for the PubMed API.
        api_key: API key to be used for the PubMed API.
    Úparsez;https://eutils.ncbi.nlm.nih.gov/entrez/eutils/esearch.fcgi?Úbase_url_esearchz:https://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?Úbase_url_efetché   Ú	max_retrygš™™™™™É?Ú
sleep_timeé   Útop_k_resultsi,  ÚMAX_QUERY_LENGTHiÐ  Údoc_content_chars_maxzyour_email@example.comÚemailÚ Úapi_keyÚbefore)ÚmodeÚvaluesÚreturnc                 ó`   — 	 ddl }|j        |d<   n# t          $ r t          d¦  «        ‚w xY w|S )z7Validate that the python package exists in environment.r   Nr   zZCould not import xmltodict python package. Please install it with `pip install xmltodict`.)Ú	xmltodictr   ÚImportError)Úclsr   r   s      úb/var/www/html/CA-Chatbot/venv/lib/python3.11/site-packages/langchain_community/utilities/pubmed.pyÚvalidate_environmentz%PubMedAPIWrapper.validate_environment<   sZ   € ð	ØÐÐÐà'œoˆF�7‰OˆOøÝð 	ð 	ð 	ÝðBñô ð ð	øøøð
 ˆs   ‚ ‘+Úqueryc                 óà   — 	 d„ |                       |d| j        …         ¦  «        D ¦   «         }|r"d                     |¦  «        d| j        …         ndS # t          $ r}d|› �cY d}~S d}~ww xY w)zá
        Run PubMed search and get the article meta information.
        See https://www.ncbi.nlm.nih.gov/books/NBK25499/#chapter4.ESearch
        It uses only the most informative fields of article meta information.
        c                 ól   — g | ]1}d |d         › d|d         › d|d         › d|d         › d|d	         › �
‘Œ2S )
zPMID: Úuidz
Published: Ú	Publishedz
Title: ÚTitlez
Copyright Information: úCopyright Informationz
Summary::
ÚSummary© )Ú.0Úresults     r!   ú
<listcomp>z(PubMedAPIWrapper.run.<locals>.<listcomp>T   s†   € ð ð ð ð ð2˜ œð 2ð 2Ø$ [Ô1ð2ð 2à  œ/ð2ð 2ð +1Ð1HÔ*Ið2ð 2ð % YÔ/ð	2ð 2ðð ð ó    Nz

zNo good PubMed Result was foundzPubMed exception: )Úloadr   Újoinr   Ú	Exception)Úselfr#   ÚdocsÚexs       r!   ÚrunzPubMedAPIWrapper.runK   s°   € ð	-ðð ð #Ÿiši¨Ð.E°Ô0EÐ.EÔ(FÑGÔGðñ ô ˆDð ð7�—’˜DÑ!Ô!Ð"> DÔ$>Ð">Ô?Ð?à6ðøõ
 ð 	-ð 	-ð 	-Ø,¨Ð,Ð,Ð,Ð,Ð,Ð,Ð,Ð,øøøøð	-øøøs   ‚AA Á
A-ÁA(Á"A-Á(A-c              #   óä  K  — | j         dz   t          t          j                             |¦  «        h¦  «        z   d| j        › d�z   }| j        dk    r|d| j        › �z  }t          j                             |¦  «        }| 	                    ¦   «          
                    d¦  «        }t          j        |¦  «        }|d         d         }|d         d	         D ]}|                      ||¦  «        V — Œd
S )zŽ
        Search PubMed for documents matching the query.
        Return an iterator of dictionaries containing the document metadata.
        zdb=pubmed&term=z&retmode=json&retmax=z&usehistory=yr   ú	&api_key=úutf-8ÚesearchresultÚwebenvÚidlistN)r   ÚstrÚurllibr   Úquoter   r   ÚrequestÚurlopenÚreadÚdecodeÚjsonÚloadsÚretrieve_article)r3   r#   Úurlr-   ÚtextÚ	json_textr;   r&   s           r!   Ú	lazy_loadzPubMedAPIWrapper.lazy_loadf   s  è è € ð Ô!Øñ å•6”<×%Ò% eÑ,Ô,Ð-Ñ.Ô.ñ/ð H dÔ&8ÐGÐGÐGñHð 	ð Œ<˜2ÒÐØÐ-˜tœ|Ð-Ð-Ñ-ˆCÝ”×'Ò'¨Ñ,Ô,ˆØ�{Š{‰}Œ}×#Ò# GÑ,Ô,ˆÝ”J˜tÑ$Ô$ˆ	à˜?Ô+¨HÔ5ˆØ˜_Ô-¨hÔ7ð 	5ð 	5ˆCØ×'Ò'¨¨VÑ4Ô4Ð4Ð4Ð4Ð4ð	5ð 	5r/   c                 óF   — t          |                      |¦  «        ¦  «        S )z‰
        Search PubMed for documents matching the query.
        Return a list of dictionaries containing the document metadata.
        )ÚlistrJ   ©r3   r#   s     r!   r0   zPubMedAPIWrapper.load|   s   € õ
 �D—N’N 5Ñ)Ô)Ñ*Ô*Ð*r/   Údocc                 óN   — |                      d¦  «        }t          ||¬¦  «        S )Nr*   )Úpage_contentÚmetadata)Úpopr   )r3   rN   Úsummarys      r!   Ú_dict2documentzPubMedAPIWrapper._dict2documentƒ   s&   € Ø—'’'˜)Ñ$Ô$ˆÝ W°sÐ;Ñ;Ô;Ð;r/   c              #   ój   K  — |                       |¬¦  «        D ]}|                      |¦  «        V — Œd S ©N)r#   )rJ   rT   )r3   r#   Úds      r!   Úlazy_load_docszPubMedAPIWrapper.lazy_load_docs‡   sJ   è è € Ø—’ e�Ñ,Ô,ð 	)ð 	)ˆAØ×%Ò% aÑ(Ô(Ð(Ð(Ð(Ð(ð	)ð 	)r/   c                 óH   — t          |                      |¬¦  «        ¦  «        S rV   )rL   rX   rM   s     r!   Ú	load_docszPubMedAPIWrapper.load_docs‹   s!   € Ý�D×'Ò'¨eÐ'Ñ4Ô4Ñ5Ô5Ð5r/   r&   r;   c                 óH  — | j         dz   |z   dz   |z   }| j        dk    r|d| j        › �z  }d}	 	 t          j                             |¦  «        }n‚# t          j        j        $ rj}|j        dk    rS|| j        k     rHt          d| j
        d	›d
�¦  «         t          j        | j
        ¦  «         | xj
        dz  c_
        |dz  }n|‚Y d }~nd }~ww xY wŒ£|                     ¦   «                              d¦  «        }|                      |¦  «        }|                      ||¦  «        S )Nzdb=pubmed&retmode=xml&id=z&webenv=r   r8   r   Ti­  zToo Many Requests, waiting for z.2fz seconds...é   é   r9   )r   r   r>   r@   rA   ÚerrorÚ	HTTPErrorÚcoder   Úprintr   ÚtimeÚsleeprB   rC   r   Ú_parse_article)	r3   r&   r;   rG   Úretryr-   ÚeÚxml_textÚ	text_dicts	            r!   rF   z!PubMedAPIWrapper.retrieve_articleŽ   su  € àÔ Ø)ñ*àñð ñð ñ	ð 	ð Œ<˜2ÒÐØÐ-˜tœ|Ð-Ð-Ñ-ˆCàˆð	ðÝœ×/Ò/°Ñ4Ô4�ØøÝ”<Ô)ð ð ð Ø”6˜S’=�= U¨T¬^Ò%;Ð%;õ ðHØ'+¤ÐGðHð Hð Hñô ð õ ”J˜tœÑ/Ô/Ð/Ø�O”O qÑ(�O”OØ˜Q‘J�E�Eà�Gð �E�E�E�Eøøøøðøøøð		ð$ —;’;‘=”=×'Ò'¨Ñ0Ô0ˆØ—J’J˜xÑ(Ô(ˆ	Ø×"Ò" 3¨	Ñ2Ô2Ð2s   °A ÁCÁ$A C	Ã	Crh   c                 ó6  — 	 |d         d         d         d         }n$# t           $ r |d         d         d         }Y nw xY w|                     di ¦  «                             dg ¦  «        }d	„ |D ¦   «         }|rd
                     |¦  «        n^t          |t          ¦  «        r|nGt          |t
          ¦  «        r1d
                     d„ |                     ¦   «         D ¦   «         ¦  «        nd}|                     di ¦  «        }d                     |                     dd¦  «        |                     dd¦  «        |                     dd¦  «        g¦  «        }||                     dd¦  «        ||                     di ¦  «                             dd¦  «        |dœS )NÚPubmedArticleSetÚPubmedArticleÚMedlineCitationÚArticleÚPubmedBookArticleÚBookDocumentÚAbstractÚAbstractTextc                 óD   — g | ]}d |v ¯d|v ¯
|d         › d|d          › �‘ŒS )z#textz@Labelz: r+   )r,   Útxts     r!   r.   z3PubMedAPIWrapper._parse_article.<locals>.<listcomp>¸   sG   € ð 
ð 
ð 
àØ˜#ˆ~ˆ~ (¨c / /ð �8Œ}Ð.Ð.  G¤Ð.Ð.à"1 / /r/   ú
c              3   ó4   K  — | ]}t          |¦  «        V — Œd S )N)r=   )r,   Úvalues     r!   ú	<genexpr>z2PubMedAPIWrapper._parse_article.<locals>.<genexpr>Ä   s(   è è € ÐMÐM¨U�c %™jœjÐMÐMÐMÐMÐMÐMr/   zNo abstract availableÚArticleDateú-ÚYearr   ÚMonthÚDayÚArticleTitleÚCopyrightInformation)r&   r(   r'   r)   r*   )ÚKeyErrorÚgetr1   Ú
isinstancer=   Údictr   )	r3   r&   rh   ÚarÚabstract_textÚ	summariesrS   Úa_dÚpub_dates	            r!   rd   zPubMedAPIWrapper._parse_article°   sÒ  € ð	TØÐ-Ô.¨Ô?Ð@QÔRØôˆBˆBøõ ð 	Tð 	Tð 	TØÐ-Ô.Ð/BÔCÀNÔSˆBˆBˆBð	TøøøàŸš˜z¨2Ñ.Ô.×2Ò2°>À2ÑFÔFˆð
ð 
à$ð
ñ 
ô 
ˆ	ð ð
ˆD�IŠI�iÑ Ô Ð õ ˜m­SÑ1Ô1ð��õ " -µÑ6Ô6ð1�D—I’IÐMÐM°m×6JÒ6JÑ6LÔ6LÐMÑMÔMÑMÔMÐMà0ð 	ð �fŠf�] BÑ'Ô'ˆØ—8’8à—’˜ Ñ#Ô#Ø—’˜ Ñ$Ô$Ø—’˜˜rÑ"Ô"ðñ
ô 
ˆð Ø—V’V˜N¨BÑ/Ô/Ø!Ø%'§V¢V¨J¸Ñ%;Ô%;×%?Ò%?Ø&¨ñ&ô &ð ð
ð 
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