| Package | Description |
|---|---|
| fr.igred.omero |
This package contains the main interfaces and abstract classes to handle OME Remote Objects.
|
| fr.igred.omero.annotations |
This package contains interfaces and classes for handling annotations.
|
| fr.igred.omero.client |
This package contains the client interfaces used to interact with an OMERO server and a class implementing them.
|
| fr.igred.omero.containers |
This package contains interfaces and classes related to the hierarchical organization for images,
e.g. containers (projects, datasets and folders).
|
| fr.igred.omero.core |
This package contains interfaces and classes to handle images and their content, such as pixels, channels or planes.
|
| fr.igred.omero.screen |
This package contains interfaces and classes related to the HCS organization, such as screens, plates or wells.
|
| Modifier and Type | Method and Description |
|---|---|
protected List<Long> |
ImportWrapper.importImage(ConnectionHandler client,
String path)
Imports one image file to the target in OMERO.
|
protected List<Long> |
ImportWrapper.importImage(ConnectionHandler client,
String path)
Imports one image file to the target in OMERO.
|
protected boolean |
ImportWrapper.importImages(ConnectionHandler client,
String... paths)
Imports all images candidates in the paths to the target in OMERO.
|
protected boolean |
ImportWrapper.importImages(ConnectionHandler client,
String... paths)
Imports all images candidates in the paths to the target in OMERO.
|
| Modifier and Type | Method and Description |
|---|---|
File |
FileAnnotation.getFile(ConnectionHandler client,
String path)
Returns the original file.
|
File |
FileAnnotationWrapper.getFile(ConnectionHandler client,
String path)
Returns the original file.
|
File |
FileAnnotationWrapper.getFile(ConnectionHandler client,
String path)
Returns the original file.
|
File |
FileAnnotation.getFile(ConnectionHandler client,
String path)
Returns the original file.
|
| Modifier and Type | Interface and Description |
|---|---|
interface |
Client
Client interface to connect to OMERO, browse through all the data accessible to the user and modify it.
|
| Modifier and Type | Class and Description |
|---|---|
class |
GatewayWrapper
Allows the user to connect to OMERO and browse through all the data accessible to the user.
|
| Modifier and Type | Method and Description |
|---|---|
ConnectionHandler |
ConnectionHandler.sudo(String username)
Returns a ConnectionHandler associated with the given username.
|
ConnectionHandler |
ConnectionHandler.sudo(String username)
Returns a ConnectionHandler associated with the given username.
|
| Modifier and Type | Method and Description |
|---|---|
List<Long> |
Dataset.importImage(ConnectionHandler client,
String path)
Imports one image file to the dataset in OMERO.
|
List<Long> |
DatasetWrapper.importImage(ConnectionHandler client,
String path)
Imports one image file to the dataset in OMERO.
|
List<Long> |
DatasetWrapper.importImage(ConnectionHandler client,
String path)
Imports one image file to the dataset in OMERO.
|
List<Long> |
Dataset.importImage(ConnectionHandler client,
String path)
Imports one image file to the dataset in OMERO.
|
boolean |
Dataset.importImages(ConnectionHandler client,
String... paths)
Imports all images candidates in the paths to the dataset in OMERO.
|
boolean |
DatasetWrapper.importImages(ConnectionHandler client,
String... paths)
Imports all images candidates in the paths to the dataset in OMERO.
|
boolean |
DatasetWrapper.importImages(ConnectionHandler client,
String... paths)
Imports all images candidates in the paths to the dataset in OMERO.
|
boolean |
Dataset.importImages(ConnectionHandler client,
String... paths)
Imports all images candidates in the paths to the dataset in OMERO.
|
| Modifier and Type | Method and Description |
|---|---|
List<File> |
Image.download(ConnectionHandler client,
String path)
Downloads the original files from the server.
|
List<File> |
ImageWrapper.download(ConnectionHandler client,
String path)
Downloads the original files from the server.
|
List<File> |
ImageWrapper.download(ConnectionHandler client,
String path)
Downloads the original files from the server.
|
List<File> |
Image.download(ConnectionHandler client,
String path)
Downloads the original files from the server.
|
default double[][][][][] |
Pixels.getAllPixels(ConnectionHandler client)
Returns an array containing the value for each voxel
|
default double[][][][][] |
Pixels.getAllPixels(ConnectionHandler client)
Returns an array containing the value for each voxel
|
double[][][][][] |
Pixels.getAllPixels(ConnectionHandler client,
int[] xBounds,
int[] yBounds,
int[] cBounds,
int[] zBounds,
int[] tBounds)
Returns an array containing the value for each voxel corresponding to the bounds
|
double[][][][][] |
PixelsWrapper.getAllPixels(ConnectionHandler client,
int[] xBounds,
int[] yBounds,
int[] cBounds,
int[] zBounds,
int[] tBounds)
Returns an array containing the value for each voxel corresponding to the bounds
|
double[][][][][] |
PixelsWrapper.getAllPixels(ConnectionHandler client,
int[] xBounds,
int[] yBounds,
int[] cBounds,
int[] zBounds,
int[] tBounds)
Returns an array containing the value for each voxel corresponding to the bounds
|
double[][][][][] |
Pixels.getAllPixels(ConnectionHandler client,
int[] xBounds,
int[] yBounds,
int[] cBounds,
int[] zBounds,
int[] tBounds)
Returns an array containing the value for each voxel corresponding to the bounds
|
default byte[][][][] |
Pixels.getRawPixels(ConnectionHandler client,
int bpp)
Returns an array containing the raw values for each voxel of each plane.
|
default byte[][][][] |
Pixels.getRawPixels(ConnectionHandler client,
int bpp)
Returns an array containing the raw values for each voxel of each plane.
|
byte[][][][] |
Pixels.getRawPixels(ConnectionHandler client,
int[] xBounds,
int[] yBounds,
int[] cBounds,
int[] zBounds,
int[] tBounds,
int bpp)
Returns an array containing the raw values for each voxel for each plane corresponding to the bounds
|
byte[][][][] |
PixelsWrapper.getRawPixels(ConnectionHandler client,
int[] xBounds,
int[] yBounds,
int[] cBounds,
int[] zBounds,
int[] tBounds,
int bpp)
Returns an array containing the raw values for each voxel for each plane corresponding to the bounds
|
byte[][][][] |
PixelsWrapper.getRawPixels(ConnectionHandler client,
int[] xBounds,
int[] yBounds,
int[] cBounds,
int[] zBounds,
int[] tBounds,
int bpp)
Returns an array containing the raw values for each voxel for each plane corresponding to the bounds
|
byte[][][][] |
Pixels.getRawPixels(ConnectionHandler client,
int[] xBounds,
int[] yBounds,
int[] cBounds,
int[] zBounds,
int[] tBounds,
int bpp)
Returns an array containing the raw values for each voxel for each plane corresponding to the bounds
|
BufferedImage |
Image.getThumbnail(ConnectionHandler client,
int size)
Retrieves the image thumbnail of the specified size.
|
BufferedImage |
ImageWrapper.getThumbnail(ConnectionHandler client,
int size)
Retrieves the image thumbnail of the specified size.
|
BufferedImage |
ImageWrapper.getThumbnail(ConnectionHandler client,
int size)
Retrieves the image thumbnail of the specified size.
|
BufferedImage |
Image.getThumbnail(ConnectionHandler client,
int size)
Retrieves the image thumbnail of the specified size.
|
| Modifier and Type | Method and Description |
|---|---|
List<Long> |
Screen.importImage(ConnectionHandler client,
String path)
Imports one image file to the screen in OMERO.
|
List<Long> |
ScreenWrapper.importImage(ConnectionHandler client,
String path)
Imports one image file to the screen in OMERO.
|
List<Long> |
ScreenWrapper.importImage(ConnectionHandler client,
String path)
Imports one image file to the screen in OMERO.
|
List<Long> |
Screen.importImage(ConnectionHandler client,
String path)
Imports one image file to the screen in OMERO.
|
boolean |
Screen.importImages(ConnectionHandler client,
String... paths)
Imports all images candidates in the paths to the screen in OMERO.
|
boolean |
ScreenWrapper.importImages(ConnectionHandler client,
String... paths)
Imports all images candidates in the paths to the screen in OMERO.
|
boolean |
ScreenWrapper.importImages(ConnectionHandler client,
String... paths)
Imports all images candidates in the paths to the screen in OMERO.
|
boolean |
Screen.importImages(ConnectionHandler client,
String... paths)
Imports all images candidates in the paths to the screen in OMERO.
|
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