PlateReader (MicroFlex - Integer 1.0.0 API)

java.lang.Object
- java.io.Reader
- - java.io.BufferedReader
  - - com.github.jessemull.microflexinteger.io.PlateReader

All Implemented Interfaces:: Closeable, AutoCloseable, Readable

public class PlateReader
extends BufferedReader

Parses an input stream containing integer stacks, plates, well sets, and/or wells. Supports the following inputs:

Formats
Plate Map
Result Table
JSON
XML

Result tables and maps must be separated using a user defined delimiter or the default tab delimiter. Input must be formatted as follows:

Example Result Plate Map:

Result
	1	2	3	4	5	6
A	9114	2667	4214	5154	1293	7882
B	8953	4827	5149	9792	2514	6448
C	6328	4896	5130	9655	5120	1485
D	2661	5290	4057	2374	1200	2724

Example Result Table:

Result
Index	Value
A1	4877
A2	5032
A3	6723
B1	4981

Example Result JSON:

  {
   "results" : [ {
     "type" : "Integer",
     "label" : "Example Result",
     "size" : 10,
     "wells" : {
       "A11" : 5645,
       "A2" : 6149,
       "A5" : 5846,
       "D10" : 5895,
       "D2" : 5452,
       "E4" : 5682,
       "E8" : 6116,
       "E9" : 4945,
       "G6" : 5874,
       "H1" : 4911
     }
   } ]
  }

Example Result XML:

  <?xml version="1.0" encoding="UTF-8" standalone="yes"?>
  <results>
     <result>
         <type>Double</type>
         <label>Example Result</label>
         <size>3</size>
         <wells>
             <well>
                 <index>A2</index>
                 <value>55873951592640616</value>
             </well>
             <well>
                 <index>A3</index>
                 <value>5303191840271489</value>
             </well>
             <well>
                 <index>A4</index>
                 <value>4902962476222037</value>
             </well>
         </wells>
     </result>
  </results>

Example Well JSON:

  {
    "wells" : [ {
      "type" : "Integer",
      "index" : "F8",
      "size" : 24,
      "values" : [ 1511, 2882, 5254 ]
    } ]
  }

Example Well Set JSON:

  {
    "wellsets" : [ {
      "type" : "Integer",
      "label" : "Example Well Set",
      "size" : 1,
      "wells" : [ {
        "index" : "A3",
        "values" : [ 4470, 9116, 5215 ]
      } ]
    } ]
  }

Example Plate JSON:

  {
    "plates" : [ {
      "type" : "Integer",
      "label" : "Example Plate",
      "descriptor" : "96-Well",
      "rows" : 8,
      "columns" : 12,
      "size" : 1,
      "wellsets" : [ {
        "label" : "Example Well Set",
        "size" : 3,
        "wells" : [ "C5", "D4", "F7" ]
      } ],
      "wells" : [ {
        "index" : "A7",
        "values" : [ 4451, 3453, 5592 ]
      } ]
    } ]
  }

Example Stack JSON:

  {
    "stacks" : [ {
      "type" : "Integer",
      "label" : "Example Stack",
      "rows" : 8,
      "columns" : 12,
      "size" : 1,
      "plates" : [ {
        "type" : "Integer",
        "label" : "Example Plate",
        "descriptor" : "96-Well",
        "rows" : 8,
        "columns" : 12,
        "size" : 1,
        "wellsets" : [ {
          "label" : "Example Well Set",
          "size" : 3,
          "wells" : [ "B6", "G1", "G12" ]
        } ],
        "wells" : [ {
          "index" : "A2",
          "values" : [ 3594, 2817, 2100 ]
        } ]
      } ]
    } ]
  }

Example Well XML:

  <wells>
     <well>
         <type>Double</type>
         <index>H8</index>
         <size>24</size>
         <values>
             <value>7870</value>
             <value>7296</value>
             <value>3898</value>
         </values>
     </well>
  </wells>

Example Well Set XML:

  <wellsets>
     <wellset>
         <type>Double</type>
         <label>Example Well Set</label>
         <size>1</size>
         <wells>
             <well>
                 <index>A11</index>
                 <values>
                     <value>1739</value>
                     <value>5465</value>
                     <value>5412</value>
                 </values>
             </well>
         </wells>
     </wellset>
  </wellsets>

Example Plate XML:

  <plates>
     <plate>
         <type>Double</type>
         <label>Example Plate</label>
         <descriptor>96-Well</descriptor>
         <rows>8</rows>
         <columns>12</columns>
         <size>1</size>
         <wellsets>
             <wellset>
                 <label>Example Well Set</label>
                 <size>3</size>
                 <wells>
                     <well>B12</well>
                     <well>E2</well>
                     <well>H8</well>
                 </wells>
             </wellset>
         </wellsets>
         <wells>
             <well>
                 <index>A5</index>
                 <values>
                     <value>1389</value>
                     <value>9246</value>
                     <value>1948</value>
                 </values>
             </well>
         </wells>
     </plate>
  </plates>

Example Stack XML:

  <stacks>
     <stack>
         <type>Double</type>
         <label>Example Stack</label>
         <rows>8</rows>
         <columns>12</columns>
         <size>1</size>
         <plates>
             <plate>
                 <type>Double</type>
                 <label>Example Plate</label>
                 <descriptor>96-Well</descriptor>
                 <rows>8</rows>
                 <columns>12</columns>
                 <size>1</size>
                 <wellsets>
                     <wellset>
                         <label>Example Well Set</label>
                         <size>3</size>
                         <wells>
                             <well>B7</well>
                             <well>H2</well>
                             <well>H3</well>
                         </wells>
                     </wellset>
                 </wellsets>
                 <wells>
                     <well>
                         <index>A2</index>
                         <values>
                             <value>1303</value>
                             <value>5321</value>
                             <value>2808</value>
                         </values>
                     </well>
                 </wells>
             </plate>
         </plates>
     </stack>
  </stacks>

Author:: Jesse L. Mull

Field Summary
- Fields inherited from class java.io.Reader
  lock

Constructor Summary

Constructors
Constructor and Description
`PlateReader(File source)` Constructs a new reader for a buffering character input stream using the default buffer size.
`PlateReader(File source, int size)` Constructs a new reader for a buffering character input stream using an input buffer of the specified size.
`PlateReader(InputStream source)` Constructs a new reader for a buffering character input stream using the default buffer size.
`PlateReader(InputStream source, Charset set)` Constructs a new reader for a buffering character input stream using the default buffer size.
`PlateReader(InputStream source, CharsetDecoder decoder)` Constructs a new reader for a buffering character input stream using the default buffer size.
`PlateReader(InputStream source, CharsetDecoder decoder, int size)` Constructs a new reader for a buffering character input stream using an input buffer of the specified size.
`PlateReader(InputStream source, int size)` Constructs a new reader for a buffering character input stream using an input buffer of the specified size.
`PlateReader(InputStream source, String charsetName, int size)` Constructs a new reader for a buffering character input stream using an input buffer of the specified size.
`PlateReader(Reader source)` Constructs a new reader for a buffering character input stream using the default buffer size.
`PlateReader(Reader source, int size)` Constructs a new reader for a buffering character input stream using an input buffer of the specified size.
`PlateReader(String fileName)` Constructs a new reader for a buffering character input stream using the default buffer size.
`PlateReader(String fileName, int size)` Constructs a new reader for a buffering character input stream using the specified file source and charset name.

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method and Description
`List<Plate>`	`allJSONPlates()` Returns a list containing all the JSON plates in the list.
`List<WellSet>`	`allJSONResults()` Returns a list containing all the JSON results in the list.
`List<WellSet>`	`allJSONSets()` Returns a list containing all the JSON sets in the list.
`List<Stack>`	`allJSONStacks()` Returns a list containing all the JSON stacks in the list.
`List<Well>`	`allJSONWells()` Returns a list containing all the JSON wells in the list.
`List<Plate>`	`allXMLPlates()` Returns a list containing all the XML plates in the list.
`List<WellSet>`	`allXMLResults()` Returns a list containing all the XML results in the list.
`List<WellSet>`	`allXMLSets()` Returns a list containing all the XML well sets in the list.
`List<Stack>`	`allXMLStacks()` Returns a list containing all the XML stacks in the list.
`List<Well>`	`allXMLWells()` Returns a list containing all the XML wells in the list.
`String`	`getDelimiter()` Returns the delimiter.
`boolean`	`hasNextJSONPlate()` Returns true if the the next plate POJO in the list is a valid plate.
`boolean`	`hasNextJSONResult()` Returns true if the the next result POJO in the list is a valid result.
`boolean`	`hasNextJSONSet()` Returns true if the the next set POJO in the list is a valid set.
`boolean`	`hasNextJSONStack()` Returns true if the the next stack POJO in the list is a valid stack.
`boolean`	`hasNextJSONWell()` Returns true if the the next well POJO in the list is a valid well.
`boolean`	`hasNextMap()` Returns true if the scanner has another plate map in its input.
`boolean`	`hasNextTable()` Returns true if the scanner has another table of wells in its input.
`boolean`	`hasNextXMLPlate()` Returns true if the the next XML plate in the list is a valid plate.
`boolean`	`hasNextXMLResult()` Returns true if the the next XML result in the list is a valid result.
`boolean`	`hasNextXMLSet()` Returns true if the the next XML well set in the list is a valid well set.
`boolean`	`hasNextXMLStack()` Returns true if the the next XML stack in the list is a valid stack.
`boolean`	`hasNextXMLWell()` Returns true if the the next XML well in the list is a valid well.
`boolean`	`hasPreviousJSONPlate()` Returns true if the the previous plate POJO in the list is a valid plate.
`boolean`	`hasPreviousJSONResult()` Returns true if the the previous result POJO in the list is a valid result.
`boolean`	`hasPreviousJSONSet()` Returns true if the the previous set POJO in the list is a valid set.
`boolean`	`hasPreviousJSONStack()` Returns true if the the previous stack POJO in the list is a valid stack.
`boolean`	`hasPreviousJSONWell()` Returns true if the the previous well POJO in the list is a valid well.
`boolean`	`hasPreviousXMLPlate()` Returns true if the the previous XML plate in the list is a valid plate.
`boolean`	`hasPreviousXMLResult()` Returns true if the the previous XML result in the list is a valid result.
`boolean`	`hasPreviousXMLSet()` Returns true if the the previous XML well set in the list is a valid well set.
`boolean`	`hasPreviousXMLStack()` Returns true if the the previous XML stack in the list is a valid stack.
`boolean`	`hasPreviousXMLWell()` Returns true if the the previous XML well in the list is a valid well.
`Plate`	`nextJSONPlate()` Parses the next plate in the plate list to a plate object and returns the result.
`WellSet`	`nextJSONResult()` Parses the next result in the result list to a well set object and returns the result.
`WellSet`	`nextJSONSet()` Parses the next set in the set list to a well set object and returns the result.
`Stack`	`nextJSONStack()` Parses the next stack in the stack list to a stack object and returns the result.
`Well`	`nextJSONWell()` Parses the next well in the well list to a well object and returns the result.
`Plate`	`nextMap()` Scans the next token of the input as a plate map.
`WellSet`	`nextTable()` Scans the next token of the input as a table of wells.
`Plate`	`nextXMLPlate()` Parses the next plate in the plate list to a plate object and returns the result.
`WellSet`	`nextXMLResult()` Parses the next result in the result list to a well set object and returns the result.
`WellSet`	`nextXMLSet()` Parses the next well set in the well set list to a well set object and returns the result.
`Stack`	`nextXMLStack()` Parses the next stack in the stack list to a stack object and returns the result.
`Well`	`nextXMLWell()` Parses the next well in the well list to a well object and returns the result.
`Plate`	`previousJSONPlate()` Parses the previous plate in the plate list to a plate object and returns the result.
`WellSet`	`previousJSONResult()` Parses the previous result in the result list to a well set object and returns the result.
`WellSet`	`previousJSONSet()` Parses the previous set in the set list to a well set object and returns the result.
`Stack`	`previousJSONStack()` Parses the previous stack in the stack list to a stack object and returns the result.
`Well`	`previousJSONWell()` Parses the previous well in the well list to a well object and returns the result.
`Plate`	`previousXMLPlate()` Parses the previous plate in the plate list to a plate object and returns the result.
`WellSet`	`previousXMLResult()` Parses the previous result in the result list to a well set object and returns the result.
`WellSet`	`previousXMLSet()` Parses the previous well set in the well set list to a well set object and returns the result.
`Stack`	`previousXMLStack()` Parses the previous stack in the stack list to a stack object and returns the result.
`Well`	`previousXMLWell()` Parses the previous well in the well list to a well object and returns the result.
`List<Plate>`	`remainingJSONPlates()` Returns a list containing the plate objects with an index greater than the current index.
`List<WellSet>`	`remainingJSONResults()` Returns a list containing the result objects with an index greater than the current index.
`List<WellSet>`	`remainingJSONSets()` Returns a list containing the set objects with an index greater than the current index.
`List<Stack>`	`remainingJSONStacks()` Returns a list containing the stack objects with an index greater than the current index.
`List<Well>`	`remainingJSONWells()` Returns a list containing the well objects with an index greater than the current index.
`List<Plate>`	`remainingXMLPlates()` Returns a list containing the plate objects with an index greater than the current index.
`List<WellSet>`	`remainingXMLResults()` Returns a list containing the result objects with an index greater than the current index.
`List<WellSet>`	`remainingXMLSets()` Returns a list containing the well set objects with an index greater than the current index.
`List<Stack>`	`remainingXMLStacks()` Returns a list containing the stack objects with an index greater than the current index.
`List<Well>`	`remainingXMLWells()` Returns a list containing the well objects with an index greater than the current index.
`void`	`setDelimiter(String delim)` Sets the delimiter.
`List<Plate>`	`spentJSONPlates()` Returns a list containing the plate objects with an index less than the current index.
`List<WellSet>`	`spentJSONResults()` Returns a list containing the result objects with an index less than the current index.
`List<WellSet>`	`spentJSONSets()` Returns a list containing the set objects with an index less than the current index.
`List<Stack>`	`spentJSONStacks()` Returns a list containing the stack objects with an index less than the current index.
`List<Well>`	`spentJSONWells()` Returns a list containing the well objects with an index less than the current index.
`List<Plate>`	`spentXMLPlates()` Returns a list containing the plate objects with an index less than the current index.
`List<WellSet>`	`spentXMLResults()` Returns a list containing the result objects with an index less than the current index.
`List<WellSet>`	`spentXMLSets()` Returns a list containing the well set objects with an index less than the current index.
`List<Stack>`	`spentXMLStacks()` Returns a list containing the stack objects with an index less than the current index.
`List<Well>`	`spentXMLWells()` Returns a list containing the well objects with an index less than the current index.

Methods inherited from class java.io.BufferedReader
close, lines, mark, markSupported, read, read, readLine, ready, reset, skip

Methods inherited from class java.io.Reader
read, read

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

- Constructor Detail
  - PlateReader
```
public PlateReader(Reader source)
```
    Constructs a new reader for a buffering character input stream using the default buffer size.
    
    Parameters:
    
    Reader - the source
  - PlateReader
```
public PlateReader(Reader source,
                   int size)
```
    Constructs a new reader for a buffering character input stream using an input buffer of the specified size.
    
    Parameters:
    
    Reader - reader source
    
    int - buffer size
    
    Throws:
    
    IOException
    
    JAXBException
  - PlateReader
```
public PlateReader(InputStream source)
```
    Constructs a new reader for a buffering character input stream using the default buffer size.
    
    Parameters:
    
    InputStream - input stream source
  - PlateReader
```
public PlateReader(InputStream source,
                   int size)
```
    Constructs a new reader for a buffering character input stream using an input buffer of the specified size.
    
    Parameters:
    
    InputStream - input stream source
    
    int - buffer size
  - PlateReader
```
public PlateReader(InputStream source,
                   Charset set)
```
    Constructs a new reader for a buffering character input stream using the default buffer size.
    
    Parameters:
    
    InputStream - input stream source
    
    Charset - character set
  - PlateReader
```
public PlateReader(InputStream source,
                   String charsetName,
                   int size)
            throws UnsupportedEncodingException
```
    Constructs a new reader for a buffering character input stream using an input buffer of the specified size.
    
    Parameters:
    
    InputStream - input stream source
    
    String - character set
    
    int - buffer size
    
    Throws:
    
    UnsupportedEncodingException
  - PlateReader
```
public PlateReader(InputStream source,
                   CharsetDecoder decoder)
```
    Constructs a new reader for a buffering character input stream using the default buffer size.
    
    Parameters:
    
    InputStream - input stream source
    
    CharsetDecoder - decoder
  - PlateReader
```
public PlateReader(InputStream source,
                   CharsetDecoder decoder,
                   int size)
```
    Constructs a new reader for a buffering character input stream using an input buffer of the specified size.
    
    Parameters:
    
    InputStream - input stream source
    
    CharsetDecoder - decoder
    
    int - buffer size
  - PlateReader
```
public PlateReader(File source)
            throws IOException,
                   JAXBException
```
    Constructs a new reader for a buffering character input stream using the default buffer size.
    
    Parameters:
    
    File - source file
    
    Throws:
    
    IOException
    
    JAXBException
  - PlateReader
```
public PlateReader(File source,
                   int size)
            throws FileNotFoundException
```
    Constructs a new reader for a buffering character input stream using an input buffer of the specified size.
    
    Parameters:
    
    File - source file
    
    int - buffer size
    
    Throws:
    
    FileNotFoundException
  - PlateReader
```
public PlateReader(String fileName)
            throws FileNotFoundException
```
    Constructs a new reader for a buffering character input stream using the default buffer size.
    
    Parameters:
    
    File - the file
    
    Throws:
    
    FileNotFoundException
  - PlateReader
```
public PlateReader(String fileName,
                   int size)
            throws FileNotFoundException
```
    Constructs a new reader for a buffering character input stream using the specified file source and charset name.
    
    Parameters:
    
    File - the file
    
    int - buffer size
    
    Throws:
    
    FileNotFoundException
    
    IOException
    
    JAXBException
- Method Detail
  - hasNextMap
```
public boolean hasNextMap()
```
    Returns true if the scanner has another plate map in its input. This method may block while waiting for input to scan. The scanner does not advance past any input.
    
    Returns:
    
    true if the scanner has another plate map in its input
  - nextMap
```
public Plate nextMap()
```
    Scans the next token of the input as a plate map. If the next token matches the plate map regular expression defined above then the token is converted into a plate object.
    
    Returns:
    
    plate containing the data from the map
  - hasNextTable
```
public boolean hasNextTable()
```
    Returns true if the scanner has another table of wells in its input. This method may block while waiting for input to scan. The scanner does not advance past any input.
    
    Returns:
    
    true if the scanner has another table of wells in its input
  - nextTable
```
public WellSet nextTable()
```
    Scans the next token of the input as a table of wells. If the next token matches the table regular expression defined above then the token is converted into a well set.
    
    Returns:
    
    the converted table of wells
  - hasNextJSONResult
```
public boolean hasNextJSONResult()
```
    Returns true if the the next result POJO in the list is a valid result.
    
    Returns:
    
    true if the next result POJO is valid
    
    Throws:
    
    IOException
    
    com.github.fge.jsonschema.core.exceptions.ProcessingException
  - hasPreviousJSONResult
```
public boolean hasPreviousJSONResult()
```
    Returns true if the the previous result POJO in the list is a valid result.
    
    Returns:
    
    true if the previous result POJO is valid
    
    Throws:
    
    IOException
    
    com.github.fge.jsonschema.core.exceptions.ProcessingException
  - nextJSONResult
```
public WellSet nextJSONResult()
```
    Parses the next result in the result list to a well set object and returns the result.
    
    Returns:
    
    the converted result object
  - previousJSONResult
```
public WellSet previousJSONResult()
```
    Parses the previous result in the result list to a well set object and returns the result.
    
    Returns:
    
    the converted result object
  - remainingJSONResults
```
public List<WellSet> remainingJSONResults()
```
    Returns a list containing the result objects with an index greater than the current index.
    
    Returns:
    
    list of converted result objects
  - spentJSONResults
```
public List<WellSet> spentJSONResults()
```
    Returns a list containing the result objects with an index less than the current index.
    
    Returns:
    
    list of converted result objects
  - allJSONResults
```
public List<WellSet> allJSONResults()
```
    Returns a list containing all the JSON results in the list.
    
    Returns:
    
    list of all result objects
  - hasNextXMLResult
```
public boolean hasNextXMLResult()
```
    Returns true if the the next XML result in the list is a valid result.
    
    Returns:
    
    true if the next XML result is valid
    
    Throws:
    
    IOException
    
    com.github.fge.jsonschema.core.exceptions.ProcessingException
  - hasPreviousXMLResult
```
public boolean hasPreviousXMLResult()
```
    Returns true if the the previous XML result in the list is a valid result.
    
    Returns:
    
    true if the previous XML result is valid
    
    Throws:
    
    IOException
    
    com.github.fge.jsonschema.core.exceptions.ProcessingException
  - nextXMLResult
```
public WellSet nextXMLResult()
```
    Parses the next result in the result list to a well set object and returns the result.
    
    Returns:
    
    the converted result object
  - previousXMLResult
```
public WellSet previousXMLResult()
```
    Parses the previous result in the result list to a well set object and returns the result.
    
    Returns:
    
    the converted result object
  - remainingXMLResults
```
public List<WellSet> remainingXMLResults()
```
    Returns a list containing the result objects with an index greater than the current index.
    
    Returns:
    
    list of converted result objects
  - spentXMLResults
```
public List<WellSet> spentXMLResults()
```
    Returns a list containing the result objects with an index less than the current index.
    
    Returns:
    
    list of converted result objects
  - allXMLResults
```
public List<WellSet> allXMLResults()
```
    Returns a list containing all the XML results in the list.
    
    Returns:
    
    list of all converted result objects
  - hasNextJSONWell
```
public boolean hasNextJSONWell()
```
    Returns true if the the next well POJO in the list is a valid well.
    
    Returns:
    
    true if the next well POJO is valid
    
    Throws:
    
    IOException
    
    com.github.fge.jsonschema.core.exceptions.ProcessingException
  - hasPreviousJSONWell
```
public boolean hasPreviousJSONWell()
```
    Returns true if the the previous well POJO in the list is a valid well.
    
    Returns:
    
    true if the previous well POJO is valid
    
    Throws:
    
    IOException
    
    com.github.fge.jsonschema.core.exceptions.ProcessingException
  - nextJSONWell
```
public Well nextJSONWell()
```
    Parses the next well in the well list to a well object and returns the result.
    
    Returns:
    
    the converted well object
  - previousJSONWell
```
public Well previousJSONWell()
```
    Parses the previous well in the well list to a well object and returns the result.
    
    Returns:
    
    the converted well object
  - remainingJSONWells
```
public List<Well> remainingJSONWells()
```
    Returns a list containing the well objects with an index greater than the current index.
    
    Returns:
    
    list of converted well objects
  - spentJSONWells
```
public List<Well> spentJSONWells()
```
    Returns a list containing the well objects with an index less than the current index.
    
    Returns:
    
    list of converted well objects
  - allJSONWells
```
public List<Well> allJSONWells()
```
    Returns a list containing all the JSON wells in the list.
    
    Returns:
    
    list of all well objects
  - hasNextXMLWell
```
public boolean hasNextXMLWell()
```
    Returns true if the the next XML well in the list is a valid well.
    
    Returns:
    
    true if the next XML well is valid
    
    Throws:
    
    IOException
    
    com.github.fge.jsonschema.core.exceptions.ProcessingException
  - hasPreviousXMLWell
```
public boolean hasPreviousXMLWell()
```
    Returns true if the the previous XML well in the list is a valid well.
    
    Returns:
    
    true if the previous XML well is valid
    
    Throws:
    
    IOException
    
    com.github.fge.jsonschema.core.exceptions.ProcessingException
  - nextXMLWell
```
public Well nextXMLWell()
```
    Parses the next well in the well list to a well object and returns the result.
    
    Returns:
    
    the converted well object
  - previousXMLWell
```
public Well previousXMLWell()
```
    Parses the previous well in the well list to a well object and returns the result.
    
    Returns:
    
    the converted well object
  - remainingXMLWells
```
public List<Well> remainingXMLWells()
```
    Returns a list containing the well objects with an index greater than the current index.
    
    Returns:
    
    list of converted well objects
  - spentXMLWells
```
public List<Well> spentXMLWells()
```
    Returns a list containing the well objects with an index less than the current index.
    
    Returns:
    
    list of converted well objects
  - allXMLWells
```
public List<Well> allXMLWells()
```
    Returns a list containing all the XML wells in the list.
    
    Returns:
    
    list of all well objects
  - hasNextJSONSet
```
public boolean hasNextJSONSet()
```
    Returns true if the the next set POJO in the list is a valid set.
    
    Returns:
    
    true if the next set POJO is valid
    
    Throws:
    
    IOException
    
    com.github.fge.jsonschema.core.exceptions.ProcessingException
  - hasPreviousJSONSet
```
public boolean hasPreviousJSONSet()
```
    Returns true if the the previous set POJO in the list is a valid set.
    
    Returns:
    
    true if the previous set POJO is valid
    
    Throws:
    
    IOException
    
    com.github.fge.jsonschema.core.exceptions.ProcessingException
  - nextJSONSet
```
public WellSet nextJSONSet()
```
    Parses the next set in the set list to a well set object and returns the result.
    
    Returns:
    
    the converted well set object
  - previousJSONSet
```
public WellSet previousJSONSet()
```
    Parses the previous set in the set list to a well set object and returns the result.
    
    Returns:
    
    the converted well set object
  - remainingJSONSets
```
public List<WellSet> remainingJSONSets()
```
    Returns a list containing the set objects with an index greater than the current index.
    
    Returns:
    
    list of converted set objects
  - spentJSONSets
```
public List<WellSet> spentJSONSets()
```
    Returns a list containing the set objects with an index less than the current index.
    
    Returns:
    
    list of converted set objects
  - allJSONSets
```
public List<WellSet> allJSONSets()
```
    Returns a list containing all the JSON sets in the list.
    
    Returns:
    
    list of all set objects
  - hasNextXMLSet
```
public boolean hasNextXMLSet()
```
    Returns true if the the next XML well set in the list is a valid well set.
    
    Returns:
    
    true if the next XML well set is valid
    
    Throws:
    
    IOException
    
    com.github.fge.jsonschema.core.exceptions.ProcessingException
  - hasPreviousXMLSet
```
public boolean hasPreviousXMLSet()
```
    Returns true if the the previous XML well set in the list is a valid well set.
    
    Returns:
    
    true if the previous XML well set is valid
    
    Throws:
    
    IOException
    
    com.github.fge.jsonschema.core.exceptions.ProcessingException
  - nextXMLSet
```
public WellSet nextXMLSet()
```
    Parses the next well set in the well set list to a well set object and returns the result.
    
    Returns:
    
    the converted well set object
  - previousXMLSet
```
public WellSet previousXMLSet()
```
    Parses the previous well set in the well set list to a well set object and returns the result.
    
    Returns:
    
    the converted well set object
  - remainingXMLSets
```
public List<WellSet> remainingXMLSets()
```
    Returns a list containing the well set objects with an index greater than the current index.
    
    Returns:
    
    list of converted well set objects
  - spentXMLSets
```
public List<WellSet> spentXMLSets()
```
    Returns a list containing the well set objects with an index less than the current index.
    
    Returns:
    
    list of converted well set objects
  - allXMLSets
```
public List<WellSet> allXMLSets()
```
    Returns a list containing all the XML well sets in the list.
    
    Returns:
    
    list of all well set objects
  - hasNextJSONPlate
```
public boolean hasNextJSONPlate()
```
    Returns true if the the next plate POJO in the list is a valid plate.
    
    Returns:
    
    true if the next plate POJO is valid
    
    Throws:
    
    IOException
    
    com.github.fge.jsonschema.core.exceptions.ProcessingException
  - hasPreviousJSONPlate
```
public boolean hasPreviousJSONPlate()
```
    Returns true if the the previous plate POJO in the list is a valid plate.
    
    Returns:
    
    true if the previous plate POJO is valid
    
    Throws:
    
    IOException
    
    com.github.fge.jsonschema.core.exceptions.ProcessingException
  - nextJSONPlate
```
public Plate nextJSONPlate()
```
    Parses the next plate in the plate list to a plate object and returns the result.
    
    Returns:
    
    the converted plate object
  - previousJSONPlate
```
public Plate previousJSONPlate()
```
    Parses the previous plate in the plate list to a plate object and returns the result.
    
    Returns:
    
    the converted plate object
  - remainingJSONPlates
```
public List<Plate> remainingJSONPlates()
```
    Returns a list containing the plate objects with an index greater than the current index.
    
    Returns:
    
    list of converted plate objects
  - spentJSONPlates
```
public List<Plate> spentJSONPlates()
```
    Returns a list containing the plate objects with an index less than the current index.
    
    Returns:
    
    list of converted plate objects
  - allJSONPlates
```
public List<Plate> allJSONPlates()
```
    Returns a list containing all the JSON plates in the list.
    
    Returns:
    
    list of all plate objects
  - hasNextXMLPlate
```
public boolean hasNextXMLPlate()
```
    Returns true if the the next XML plate in the list is a valid plate.
    
    Returns:
    
    true if the next XML plate is valid
    
    Throws:
    
    IOException
    
    com.github.fge.jsonschema.core.exceptions.ProcessingException
  - hasPreviousXMLPlate
```
public boolean hasPreviousXMLPlate()
```
    Returns true if the the previous XML plate in the list is a valid plate.
    
    Returns:
    
    true if the previous XML plate is valid
    
    Throws:
    
    IOException
    
    com.github.fge.jsonschema.core.exceptions.ProcessingException
  - nextXMLPlate
```
public Plate nextXMLPlate()
```
    Parses the next plate in the plate list to a plate object and returns the result.
    
    Returns:
    
    the converted plate object
  - previousXMLPlate
```
public Plate previousXMLPlate()
```
    Parses the previous plate in the plate list to a plate object and returns the result.
    
    Returns:
    
    the converted plate object
  - remainingXMLPlates
```
public List<Plate> remainingXMLPlates()
```
    Returns a list containing the plate objects with an index greater than the current index.
    
    Returns:
    
    list of converted plate objects
  - spentXMLPlates
```
public List<Plate> spentXMLPlates()
```
    Returns a list containing the plate objects with an index less than the current index.
    
    Returns:
    
    list of converted plate objects
  - allXMLPlates
```
public List<Plate> allXMLPlates()
```
    Returns a list containing all the XML plates in the list.
    
    Returns:
    
    list of all plate objects
  - hasNextJSONStack
```
public boolean hasNextJSONStack()
```
    Returns true if the the next stack POJO in the list is a valid stack.
    
    Returns:
    
    true if the next stack POJO is valid
    
    Throws:
    
    IOException
    
    com.github.fge.jsonschema.core.exceptions.ProcessingException
  - hasPreviousJSONStack
```
public boolean hasPreviousJSONStack()
```
    Returns true if the the previous stack POJO in the list is a valid stack.
    
    Returns:
    
    true if the previous stack POJO is valid
    
    Throws:
    
    IOException
    
    com.github.fge.jsonschema.core.exceptions.ProcessingException
  - nextJSONStack
```
public Stack nextJSONStack()
```
    Parses the next stack in the stack list to a stack object and returns the result.
    
    Returns:
    
    the converted stack object
  - previousJSONStack
```
public Stack previousJSONStack()
```
    Parses the previous stack in the stack list to a stack object and returns the result.
    
    Returns:
    
    the converted stack object
  - remainingJSONStacks
```
public List<Stack> remainingJSONStacks()
```
    Returns a list containing the stack objects with an index greater than the current index.
    
    Returns:
    
    list of converted stack objects
  - spentJSONStacks
```
public List<Stack> spentJSONStacks()
```
    Returns a list containing the stack objects with an index less than the current index.
    
    Returns:
    
    list of converted stack objects
  - allJSONStacks
```
public List<Stack> allJSONStacks()
```
    Returns a list containing all the JSON stacks in the list.
    
    Returns:
    
    list of all stack objects
  - hasNextXMLStack
```
public boolean hasNextXMLStack()
```
    Returns true if the the next XML stack in the list is a valid stack.
    
    Returns:
    
    true if the next XML stack is valid
    
    Throws:
    
    IOException
    
    com.github.fge.jsonschema.core.exceptions.ProcessingException
  - hasPreviousXMLStack
```
public boolean hasPreviousXMLStack()
```
    Returns true if the the previous XML stack in the list is a valid stack.
    
    Returns:
    
    true if the previous XML stack is valid
    
    Throws:
    
    IOException
    
    com.github.fge.jsonschema.core.exceptions.ProcessingException
  - nextXMLStack
```
public Stack nextXMLStack()
```
    Parses the next stack in the stack list to a stack object and returns the result.
    
    Returns:
    
    the converted stack object
  - previousXMLStack
```
public Stack previousXMLStack()
```
    Parses the previous stack in the stack list to a stack object and returns the result.
    
    Returns:
    
    the converted stack object
  - remainingXMLStacks
```
public List<Stack> remainingXMLStacks()
```
    Returns a list containing the stack objects with an index greater than the current index.
    
    Returns:
    
    list of converted stack objects
  - spentXMLStacks
```
public List<Stack> spentXMLStacks()
```
    Returns a list containing the stack objects with an index less than the current index.
    
    Returns:
    
    list of converted stack objects
  - allXMLStacks
```
public List<Stack> allXMLStacks()
```
    Returns a list containing all the XML stacks in the list.
    
    Returns:
    
    list of all stack objects
  - setDelimiter
```
public void setDelimiter(String delim)
```
    Sets the delimiter.
    
    Parameters:
    
    String - the delimiter
  - getDelimiter
```
public String getDelimiter()
```
    Returns the delimiter.
    
    Returns:
    
    the delimiter

Class PlateReader

Field Summary

Fields inherited from class java.io.Reader

Constructor Summary

Method Summary

Methods inherited from class java.io.BufferedReader

Methods inherited from class java.io.Reader

Methods inherited from class java.lang.Object

Constructor Detail

PlateReader

PlateReader

PlateReader

PlateReader

PlateReader

PlateReader

PlateReader

PlateReader

PlateReader

PlateReader

PlateReader

PlateReader

Method Detail

hasNextMap

nextMap

hasNextTable

nextTable

hasNextJSONResult

hasPreviousJSONResult

nextJSONResult

previousJSONResult

remainingJSONResults

spentJSONResults

allJSONResults

hasNextXMLResult

hasPreviousXMLResult

nextXMLResult

previousXMLResult

remainingXMLResults

spentXMLResults

allXMLResults

hasNextJSONWell

hasPreviousJSONWell

nextJSONWell

previousJSONWell

remainingJSONWells

spentJSONWells

allJSONWells

hasNextXMLWell

hasPreviousXMLWell

nextXMLWell

previousXMLWell

remainingXMLWells

spentXMLWells

allXMLWells

hasNextJSONSet

hasPreviousJSONSet

nextJSONSet

previousJSONSet

remainingJSONSets

spentJSONSets

allJSONSets

hasNextXMLSet

hasPreviousXMLSet

nextXMLSet

previousXMLSet

remainingXMLSets

spentXMLSets

allXMLSets

hasNextJSONPlate

hasPreviousJSONPlate

nextJSONPlate

previousJSONPlate

remainingJSONPlates

spentJSONPlates

allJSONPlates

hasNextXMLPlate

hasPreviousXMLPlate

nextXMLPlate

previousXMLPlate

remainingXMLPlates