bio::tools::eutilities::historyi(3pm) [debian man page]
Bio::Tools::EUtilities::HistoryI(3pm) User Contributed Perl Documentation Bio::Tools::EUtilities::HistoryI(3pm) NAME
Bio::Tools::EUtilities::HistoryI - simple extension of EUtilDataI interface class for classes which hold NCBI server history data SYNOPSIS
#should work for any class which is-a HistoryI if ($obj->has_History) { # do something here } ($webenv, $querykey) = $obj->history; $obj->history($webenv, $querykey); $webenv = $obj->get_webenv; $query_key = $obj->get_query_key; DESCRIPTION
This class extends methods for any EUtilDataI implementation allow instances to dealwith NCBI history data (WebEnv and query_key). These can be used as parameters for further queries against data sets stored on the NCBI server, much like NCBI's Entrez search history. These are important when one wants to run complex queries using esearch, retrieve related data using elink, and retrieve large datasets using epost/efetch. The simplest implementation is Bio::Tools::EUtilities::History, which holds the history data for epost. See also Bio::Tools::EUtilities::Query (esearch) and Bio::Tools::EUtilities::LinkSet (elink), which also implement HistoryI. FEEDBACK
Mailing Lists User feedback is an integral part of the evolution of this and other Bioperl modules. Send your comments and suggestions preferably to one of the Bioperl mailing lists. Your participation is much appreciated. bioperl-l@lists.open-bio.org - General discussion http://www.bioperl.org/wiki/Mailing_lists - About the mailing lists Support Please direct usage questions or support issues to the mailing list: bioperl-l@bioperl.org rather than to the module maintainer directly. Many experienced and reponsive experts will be able look at the problem and quickly address it. Please include a thorough description of the problem with code and data examples if at all possible. Reporting Bugs Report bugs to the Bioperl bug tracking system to help us keep track the bugs and their resolution. Bug reports can be submitted via the web. https://redmine.open-bio.org/projects/bioperl/ AUTHOR
Email cjfields at bioperl dot org APPENDIX
The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _ history Title : history Usage : my ($webenv, $qk) = $hist->history Function : Get/Set two-element list of webenv() and query_key() Returns : array Args : two-element list of webenv, querykey get_webenv Title : get_webenv Usage : my $webenv = $hist->get_webenv Function : returns web environment key needed to retrieve results from NCBI server Returns : string (encoded key) Args : none get_query_key Title : get_query_key Usage : my $qk = $hist->get_query_key Function : returns query key (integer) for the history number for this session Returns : integer Args : none perl v5.14.2 2012-03-02 Bio::Tools::EUtilities::HistoryI(3pm)
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Bio::Tools::EUtilities::Query::GlobalQuery(3pm) User Contributed Perl Documentation Bio::Tools::EUtilities::Query::GlobalQuery(3pm) NAME
Bio::Tools::EUtilities::Query::GlobalQuery - container class for egquery data SYNOPSIS
#### should not create instance directly; Bio::Tools::EUtilities does this #### my $parser = Bio::Tools::EUtilities->new(-eutil => 'egquery', -term => 'BRCA1'); # $gquery is a Bio::Tools::EUtilities::Query::GlobalQuery while (my $gquery = $parser->next_GlobalQuery) { print $gquery->to_string." "; # stringify print "DB:".$gquery->get_db." ".$gquery->get_count; } DESCRIPTION
This is a simple container class for egquery data. Currently this just contains various accessors for the data, such as get_database(), get_count(), etc. for each item in a global query. FEEDBACK
Mailing Lists User feedback is an integral part of the evolution of this and other Bioperl modules. Send your comments and suggestions preferably to one of the Bioperl mailing lists. Your participation is much appreciated. bioperl-l@lists.open-bio.org - General discussion http://www.bioperl.org/wiki/Mailing_lists - About the mailing lists Support Please direct usage questions or support issues to the mailing list: bioperl-l@bioperl.org rather than to the module maintainer directly. Many experienced and reponsive experts will be able look at the problem and quickly address it. Please include a thorough description of the problem with code and data examples if at all possible. Reporting Bugs Report bugs to the Bioperl bug tracking system to help us keep track the bugs and their resolution. Bug reports can be submitted via the web. https://redmine.open-bio.org/projects/bioperl/ AUTHOR
Email cjfields at bioperl dot org APPENDIX
The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _ get_term Title : get_term Usage : $st = $qd->get_term; Function: retrieve the term for the global search Returns : string Args : none get_database Title : get_database Usage : $ct = $qd->get_database; Function: retrieve the database Returns : string Args : none get_count Title : get_count Usage : $ct = $qd->get_count; Function: retrieve the count for the database Returns : string Args : none get_status Title : get_status Usage : $st = $qd->get_status; Function: retrieve the query status for database in db() Returns : string Args : none get_menu_name Title : get_menu_name Usage : $ct = $qd->get_menu_name; Function: retrieve the full name for the database in db() Returns : string Args : None to_string Title : to_string Usage : $foo->to_string() Function : converts current object to string Returns : none Args : (optional) simple data for text formatting Note : Used generally for debugging and for the print_GlobalQuery method perl v5.14.2 2012-03-02 Bio::Tools::EUtilities::Query::GlobalQuery(3pm)