FileType (MSDK - Mass Spectrometry Development Kit 0.0.20 API)

java.lang.Object
- java.lang.Enum<FileType>
- - io.github.msdk.datamodel.FileType

All Implemented Interfaces:

Serializable, Comparable<FileType>
```
public enum FileType
extends Enum<FileType>
```
Enum of supported raw data file formats

Enum Constant Summary

Enum Constants
Enum Constant and Description
`CSV_CHROMATOF` Peak table and MS export format used by LECO's ChromaTOF software for GC, GC-MS and GCxGC-MS instruments.
`MZ5` mz5 format, based on HDF5.
`MZDATA` mzData format, now deprecated in favor of mzML.
`MZDB` mzDB format.
`MZML` mzML format.
`MZTAB` mzTab format.
`MZXML` mzXML format, now deprecated in favor of mzML.
`NETCDF` NetCDF (ANDI-MS) format, commonly used for GC-MS data.
`THERMO_RAW` Native RAW format of Thermo Fisher Scientific MS instruments.
`UNKNOWN` Unknown or unsupported format.
`WATERS_RAW` Native RAW format of Waters MS instruments.

Method Summary

All Methods Static Methods Concrete Methods
Modifier and Type	Method and Description
`static FileType`	`valueOf(String name)` Returns the enum constant of this type with the specified name.
`static FileType[]`	`values()` Returns an array containing the constants of this enum type, in the order they are declared.

Methods inherited from class java.lang.Enum
clone, compareTo, equals, finalize, getDeclaringClass, hashCode, name, ordinal, toString, valueOf

Methods inherited from class java.lang.Object
getClass, notify, notifyAll, wait, wait, wait

- Enum Constant Detail
  - MZML
```
public static final FileType MZML
```
    mzML format. See Martens L, Chambers M, Sturm M, Kessner D, Levander F, Shofstahl J, Tang WH, Römpp A, Neumann S, Pizarro AD, Montecchi-Palazzi L, Tasman N, Coleman M, Reisinger F, Souda P, Hermjakob H, Binz PA, Deutsch EW (2011) mzML-a community standard for mass spectrometry data, Mol Cell Proteomics 10(1):R110.000133. doi:10.1074/mcp.R110.000133
  - MZ5
```
public static final FileType MZ5
```
    mz5 format, based on HDF5. See Wilhelm M, Kirchner M, Steen JA, Steen H (2012) mz5: space- and time-efficient storage of mass spectrometry data sets, Mol Cell Proteomics 11(1):O111.011379. doi:10.1074/mcp.O111.011379
  - MZDB
```
public static final FileType MZDB
```
    mzDB format. See 1. Bouyssié, D. et al. mzDB: a file format using multiple indexing strategies for the efficient analysis of large LC-MS/MS and SWATH-MS data sets. Mol. Cell Proteomics 14, 771–781 (2015). doi:10.1074/mcp.O114.039115
  - MZXML
```
public static final FileType MZXML
```
    mzXML format, now deprecated in favor of mzML. See Pedrioli PG, Eng JK, Hubley R, Vogelzang M, Deutsch EW, Raught B, Pratt B, Nilsson E, Angeletti RH, Apweiler R, Cheung K, Costello CE, Hermjakob H, Huang S, Julian RK, Kapp E, McComb ME, Oliver SG, Omenn G, Paton NW, Simpson R, Smith R, Taylor CF, Zhu W, Aebersold R (2004) A common open representation of mass spectrometry data and its application to proteomics research, Nat. Biotechnol. 22(11):1459–66. doi:10.1038/nbt1031
  - MZDATA
```
public static final FileType MZDATA
```
    mzData format, now deprecated in favor of mzML. See Orchard S, Montechi-Palazzi L, Deutsch EW, Binz PA, Jones AR, Paton N, Pizarro A, Creasy DM, Wojcik J, Hermjakob H (2007) Five years of progress in the Standardization of Proteomics Data 4(th) Annual Spring Workshop of the HUPO-Proteomics Standards Initiative April 23–25, 2007 Ecole Nationale Supérieure (ENS), Lyon, France, Proteomics 7(19):3436–40. doi:10.1002/pmic.200700658
  - NETCDF
```
public static final FileType NETCDF
```
    NetCDF (ANDI-MS) format, commonly used for GC-MS data. See the following standards ASTM E1947, Standard Specification for Analytical Data Interchange Protocol for Chromatographic Data. doi:10.1520/E1947-98R14 ASTM E1948, Standard Guide for Analytical Data Interchange Protocol for Chromatographic Data. doi:10.1520/E1948-98R14
  - THERMO_RAW
```
public static final FileType THERMO_RAW
```
    Native RAW format of Thermo Fisher Scientific MS instruments.
  - WATERS_RAW
```
public static final FileType WATERS_RAW
```
    Native RAW format of Waters MS instruments.
  - MZTAB
```
public static final FileType MZTAB
```
    mzTab format. Standard format for sharing feature tables.
  - CSV_CHROMATOF
```
public static final FileType CSV_CHROMATOF
```
    Peak table and MS export format used by LECO's ChromaTOF software for GC, GC-MS and GCxGC-MS instruments.
  - UNKNOWN
```
public static final FileType UNKNOWN
```
    Unknown or unsupported format.
- Method Detail
  - values
```
public static FileType[] values()
```
    Returns an array containing the constants of this enum type, in the order they are declared. This method may be used to iterate over the constants as follows:
```
for (FileType c : FileType.values())
    System.out.println(c);
```
    Returns:
    
    an array containing the constants of this enum type, in the order they are declared
  - valueOf
```
public static FileType valueOf(String name)
```
    Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)
    
    Parameters:
    
    name - the name of the enum constant to be returned.
    
    Returns:
    
    the enum constant with the specified name
    
    Throws:
    
    IllegalArgumentException - if this enum type has no constant with the specified name
    
    NullPointerException - if the argument is null

Enum FileType

Enum Constant Summary

Method Summary

Methods inherited from class java.lang.Enum

Methods inherited from class java.lang.Object

Enum Constant Detail

MZML

MZ5

MZDB

MZXML

MZDATA

NETCDF

THERMO_RAW

WATERS_RAW

MZTAB

CSV_CHROMATOF

UNKNOWN

Method Detail

values

valueOf