NAME
Labkey::Query
SYNOPSIS
use Labkey::Query;
my $results = Labkey::Query::selectRows(
-baseUrl => 'http://labkey.com:8080/labkey/',
-containerPath => 'myFolder/',
-schemaName => 'lists',
-queryName => 'mid_tags',
);
ABSTRACT
For interacting with data in LabKey Server
DESCRIPTION
This module is designed to simplify querying and manipulating data in LabKey Server. It should more or less replicate the javascript APIs of the same names.
After the module is installed, if you need to login with a specific user you will need to create a .netrc file in the home directory of the user running the perl script. Documentation on .netrc can be found here: https://www.labkey.org/wiki/home/Documentation/page.view?name=netrc
In API versions 0.08 and later, you can specify the param '-loginAsGuest' which will query the server without any credentials. The server must permit guest to that folder for this to work though.
SEE ALSO
The LabKey client APIs are described in greater detail here: https://www.labkey.org/wiki/home/Documentation/page.view?name=viewAPIs
Support questions should be directed to the LabKey forum: https://www.labkey.org/announcements/home/Server/Forum/list.view?
AUTHOR
Ben Bimber
COPYRIGHT
Copyright (c) 2010 Ben Bimber
Licensed under the Apache License, Version 2.0: http://www.apache.org/licenses/LICENSE-2.0
selectRows()
selectRows() can be used to query data from LabKey server
The following are the minimum required params:
my $results = Labkey::Query::selectRows(
-baseUrl => 'http://labkey.com:8080/labkey/',
-containerPath => 'myFolder/',
-schemaName => 'lists',
-queryName => 'mid_tags',
);The following are optional:
-viewName => 'view1',
-filterArray => [
['file_active', 'eq', 1],
['species', 'neq', 'zebra']
], #allows filters to be applied to the query similar to the labkey Javascript API.
-parameters => [
['enddate', '2011/01/01'],
['totalDays', 15]
], #allows parameters to be applied to the query similar to the labkey Javascript API.
-maxRows => 10 #the max number of rows returned
-sort => 'ColumnA,ColumnB' #sort order used for this query
-offset => 100 #the offset used when running the query
-columns => 'ColumnA,ColumnB' #A comma-delimited list of column names to include in the results.
-containerFilter => 'currentAndSubfolders'
-debug => 1, #will result in a more verbose output
-loginAsGuest => #will not attempt to lookup credentials in netrc
-requiredVersion => 9.1 #if 8.3 is selected, it will use Labkey's pre-9.1 format for returning the data. 9.1 is the default. See documentation of LABKEY.Query.ExtendedSelectRowsResults for more detail here:
https://www.labkey.org/download/clientapi_docs/javascript-api/symbols/LABKEY.Query.html
NOTE:
- In version 1.0 and later of the perl API, the default result format is 9.1. This is different from the LabKey JS, which defaults to the earlier format for legacy purposes. - The environment variable 'LABKEY_URL' can be used instead of supplying a '-baseUrl' param
insertRows()
insertRows() can be used to insert records into a LabKey table
The following are the minimum required params:
my $insert = Labkey::Query::insertRows(
-baseUrl => 'http://labkey.com:8080/labkey/',
-containerPath => 'myFolder/',
-schemaName => 'lists',
-queryName => 'backup',
-rows => [{
"JobName" => 'jobName',
"Status" => $status,
"Log" => $log,
"Date" => $date
}],
);
The following are optional:
-debug => 1, #will result in a more verbose output
-loginAsGuest => #will not attempt to lookup credentials in netrcNOTE: The environment variable 'LABKEY_URL' can be used instead of supplying a '-baseUrl' param
updateRows()
updateRows() can be used to update records in a LabKey table
The following are the minimum required params:
my $update = Labkey::Query::updateRows(
-baseUrl => 'http://labkey.com:8080/labkey/',
-containerPath => 'myFolder/',
-schemaName => 'lists',
-queryName => 'backup',
-rows => [{
"JobName" => 'jobName',
"Status" => $status,
"Log" => $log,
"Date" => $date
}],
);
The following are optional:
-debug => 1, #will result in a more verbose output
-loginAsGuest => #will not attempt to lookup credentials in netrcNOTE: The environment variable 'LABKEY_URL' can be used instead of supplying a '-baseUrl' param
deleteRows()
deleteRows() can be used to delete records in a LabKey table
The following are the minimum required params:
my $update = Labkey::Query::deleteRows(
-baseUrl => 'http://labkey.com:8080/labkey/',
-containerPath => 'myFolder/',
-schemaName => 'lists',
-queryName => 'backup',
-rows => [{
"Key" => '12',
}],
);
The following are optional:
-debug => 1, #will result in a more verbose output
-loginAsGuest => #will not attempt to lookup credentials in netrcNOTE: The environment variable 'LABKEY_URL' can be used instead of supplying a '-baseUrl' param
executeSql()
executeSql() can be used to execute arbitrary SQL
The following are the minimum required params:
my $result = Labkey::Query::executeSql(
-baseUrl => 'http://labkey.com:8080/labkey/',
-containerPath => 'myFolder/',
-schemaName => 'study',
-sql => 'select MyDataset.foo, MyDataset.bar from MyDataset',
);
The following are optional:
-maxRows => 10 #the max number of rows returned
-sort => 'ColumnA,ColumnB' #sort order used for this query
-offset => 100 #the offset used when running the query
-containerFilter => 'currentAndSubfolders'
-debug => 1, #will result in a more verbose output
-loginAsGuest => #will not attempt to lookup credentials in netrcNOTE: The environment variable 'LABKEY_URL' can be used instead of supplying a '-baseUrl' param