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# This script shows a simple connection to OMERO, printing details of the connection.
# NB: You will need to edit the 'host', 'user' and 'password' fields before running.

# Connect to the Python Blitz Gateway

# See OmeroPy/Gateway for more info

# import the libraries we need
from omero.gateway import BlitzGateway
from omero.rtypes import *

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from omero.gateway import BlitzGateway
import omero
from omero.rtypes import rtime, rlong, rstring, rlist, rint
from omero_model_ExperimenterI import ExperimenterI
from omero_model_ExperimenterGroupI import ExperimenterGroupI
from omero_model_PermissionsI import PermissionsI

conn = BlitzGateway('root', 'omero', host='localhost');
print conn.connect()

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#!/usr/bin/env python

"""
   Script for adding annotations to Project. 
"""
import omero.clients
from omero import client_wrapper
from omero.rtypes import *
import random
from datetime import datetime

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#!/usr/bin/env python

"""
   Script for switching rows / columns of wells in plate. See https://www.openmicroscopy.org/community/posting.php?mode=reply&f=4&t=1211
"""
import omero
import omero.clients
from omero.gateway import BlitzGateway
from omero.rtypes import rint

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#!/usr/bin/env python

"""
   Script for switching rows / columns of wells in plate. See https://www.openmicroscopy.org/community/posting.php?mode=reply&f=4&t=1211
"""
import omero
import omero.clients
from omero.gateway import BlitzGateway
from omero.rtypes import rint

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#!/usr/bin/python
# -*- coding: utf-8 -*-

# Sript to look for images with key-value pairs in Original Metadata
# See https://www.openmicroscopy.org/community/viewtopic.php?f=4&t=1226

import omero
import omero.scripts as scripts
from omero.gateway import BlitzGateway
from omero.rtypes import *

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import omero.scripts as scripts
from omero.gateway import BlitzGateway
from omero.rtypes import rstring, rlong


def renameChannels(conn, parameterMap):
    
    updateService = conn.getUpdateService()

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    def createImageFromNumpySeq (self, zctPlanes, imageName, sizeZ=1, sizeC=1, sizeT=1, description=None, dataset=None):
        """
        Creates a new multi-dimensional image from the sequence of 2D numpy arrays in zctPlanes.
        zctPlanes should be a generator of numpy 2D arrays of shape (sizeY, sizeX) ordered
        to iterate through T first, then C then Z.
        Example usage:
        original = conn.getObject("Image", 1)
        sizeZ = original.getSizeZ()
        sizeC = original.getSizeC()
        sizeT = original.getSizeT()

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Get the ID of the 'user' group:

omero=# select * from experimentergroup where name='user';
 id | description | permissions | name | version | external_id 
----+-------------+-------------+------+---------+-------------
  1 |             |         -52 | user |       0 |            


Get the ID of the Experimenter you want, using login name:

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#!/usr/bin/python
# -*- coding: utf-8 -*-
"""
This script tries to restore the colors for the selected LIF/LSM images.

@author Pierre Pouchin
<a href="mailto:[email protected]">[email protected]</a>
@version 4.3
"""