My $request = new HTTP::Request("POST", $ePost_url, $headers ) # Prepare file - substitute all separators to commaĬontent_Type => "application/x-www-form-urlencoded" Open IF, $ARGV || die "Can't open for read: $!\n" My $eSummary_url = "$eutils_root/esummary.fcgi" My $ePost_url = "$eutils_root/epost.fcgi" # File Description: ePost/eSummary calling example # Efetch each time the the Enter Key is pressed, after a prompt.ĮPost-ESummary demonstrates basic uploading and document summary retrieval. # this area defines a loop which will display $retmax citation results from Print "Count = $Count QueryKey = $QueryKey WebEnv = $WebEnv\n" Print "\nESEARCH RESULT: $esearch_result\n" # $Count, $QueryKey, and $WebEnv for later use and then displayed. # the results are displayed ?nd parsed into variables # $esearch_result containts the result of the ESearch call # $esearch cont?ins the PATH & parameters for the ESearch call My $report = ask_user("Report", "abstract") My $query = ask_user("Query", "zanzibar") # if not answered, default values, will be assigned as shown below. # $db, $query, and $report may be supplied by the user when prompted # $utils contains route for the utilities. # Define library for the 'get' function used in the next section. # Subroutine to prompt user for variables in the next section # File Description: eSearch/eFetch calling example # Please cite the author in any work or product based on this material. # warranties of performance, merchantability or fitness for any particular # Government disclaim all warranties, express or implied, including
#TECH UTILITIES 2.0 SOFTWARE#
# may be obtained by using this software or data. # Government do not and cannot warrant the performance or results that # and reliability of the software and data, the NLM and the U.S. # Although all reasonable efforts have been taken to ensure the accuracy # Government have not placed any restriction on its use or reproduction. The National Library of Medicine and the U.S. This software/database is freely available # the author's official duties as a United States Government employee and # terms of the United States Copyright Act. # This software/database is a "United States Government Work" under the # National Center for Biotechnology Information Both scripts should be copied and saved as plain text files and can be executed on any computer with a Perl installation.ĮSearch-EFetch demonstrates basic search and retrieval functions. The two sample Perl scripts below demonstrate basic E-utility functions. Of primary organism, and all higher levels of taxonomy esummary.fcgi?db=&id=&version=2.0īelow is an example version 2.0 DocSum from Entrez Protein (the same record as shown above in the default DocSum XML). Each Entrez database provides its own unique DTD for version 2.0 DocSums, and a link to the relevant DTD is provided in the header of the version 2.0 XML. To retrieve version 2.0 DocSums, the URL should contain the &version parameter with an assigned value of ‘2.0’. Version 2.0 of ESummary is an alternate XML presentation of Entrez DocSums. Below is an example DocSum for Entrez Protein.
#TECH UTILITIES 2.0 SERIES#
The output of ESummary is a series of XML “DocSums” (Document Summaries), the format of which depends on the database. # details of how Entrez translated the query 255147 # total number of records matching queryĢ0# number of UIDs returned in this XML default=20Ġ# index of first record returned default=0ġ# QueryKey, only present if WebEnv only present if &usehistory=y
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