omero package¶
Subpackages¶
- omero.api package
- omero.gateway package
- omero.grid package
- omero.install package
- Submodules
- Module contents
- omero.model package
- omero.plugins package
- Submodules
- omero.plugins.admin module
- omero.plugins.basics module
- omero.plugins.chgrp module
- omero.plugins.chown module
- omero.plugins.db module
- omero.plugins.delete module
- omero.plugins.download module
- omero.plugins.export module
- omero.plugins.fs module
- omero.plugins.group module
- omero.plugins.hql module
- omero.plugins.import module
- omero.plugins.ldap module
- omero.plugins.node module
- omero.plugins.obj module
- omero.plugins.perf module
- omero.plugins.prefs module
- omero.plugins.script module
- omero.plugins.search module
- omero.plugins.sessions module
- omero.plugins.submit module
- omero.plugins.tag module
- omero.plugins.user module
- Module contents
- Submodules
- omero.romio package
- omero.testlib package
- Submodules
- Module contents
AbstractRepoTest
AbstractRepoTest.all()
AbstractRepoTest.assert_dir_write()
AbstractRepoTest.assert_error()
AbstractRepoTest.assert_import()
AbstractRepoTest.assert_listings()
AbstractRepoTest.assert_no_dir_write()
AbstractRepoTest.assert_no_read()
AbstractRepoTest.assert_no_write()
AbstractRepoTest.assert_passes()
AbstractRepoTest.assert_read()
AbstractRepoTest.assert_write()
AbstractRepoTest.create_file()
AbstractRepoTest.create_fileset()
AbstractRepoTest.create_settings()
AbstractRepoTest.create_test_dir()
AbstractRepoTest.full_import()
AbstractRepoTest.get_managed_repo()
AbstractRepoTest.raw()
AbstractRepoTest.setup_method()
AbstractRepoTest.test_dir()
AbstractRepoTest.upload_folder()
AbstractRepoTest.user_dir()
Clients
ITest
ITest.DEFAULT_GROUP_OWNER
ITest.DEFAULT_PERMS
ITest.DEFAULT_PRIVILEGES
ITest.DEFAULT_SYSTEM
ITest.add_experimenters()
ITest.add_groups()
ITest.calculate_sha1()
ITest.change_group()
ITest.change_permissions()
ITest.create_datasets()
ITest.create_pixels()
ITest.create_test_image()
ITest.delete()
ITest.do_submit()
ITest.get_fileset()
ITest.get_pixels_type()
ITest.group_and_name()
ITest.import_fake_file()
ITest.import_image()
ITest.import_plates()
ITest.import_pyramid()
ITest.index()
ITest.keep_root_alive()
ITest.link()
ITest.log
ITest.login_args()
ITest.login_attempt()
ITest.make_dataset()
ITest.make_file_annotation()
ITest.make_image()
ITest.make_project()
ITest.make_tag()
ITest.missing_pyramid()
ITest.new_client()
ITest.new_client_and_user()
ITest.new_dataset()
ITest.new_group()
ITest.new_image()
ITest.new_object()
ITest.new_project()
ITest.new_tag()
ITest.new_user()
ITest.omerodistdir()
ITest.remove_experimenters()
ITest.root_login_args()
ITest.set_context()
ITest.setup_class()
ITest.skip_if()
ITest.teardown_class()
ITest.timeit()
ITest.tmpfile()
ITest.user_and_name()
ITest.uuid()
ITest.wait_for_pyramid()
ITest.wait_on_cmd()
ITest.write()
PF
ProjectionFixture
- omero.util package
- Submodules
- omero.util.OmeroPopo module
- omero.util.ROIDrawingUtils module
- omero.util.ROI_utils module
- omero.util.cleanse module
- omero.util.concurrency module
- omero.util.decorators module
- omero.util.figureUtil module
- omero.util.imageUtil module
- omero.util.image_utils module
- omero.util.import_candidates module
- omero.util.importperf module
- omero.util.metadata_mapannotations module
- omero.util.metadata_utils module
- omero.util.pixelstypetopython module
- omero.util.populate_metadata module
BulkToMapAnnotationContext
DatasetWrapper
DeleteMapAnnotationContext
HeaderResolver
ImageData
MetadataError
PDIWrapper
ParsingContext
PlateData
PlateWrapper
ProjectWrapper
SPWWrapper
ScreenWrapper
Skip
ValueResolver
ValueWrapper
WellData
WellSampleData
get_config()
parse_column_types()
parse_target_object()
usage()
- omero.util.populate_roi module
AbstractMeasurementCtx
AbstractPlateAnalysisCtx
DownloadingOriginalFileProvider
FlexMeasurementCtx
FlexPlateAnalysisCtx
InCellMeasurementCtx
InCellPlateAnalysisCtx
MIASMeasurementCtx
MIASPlateAnalysisCtx
MeasurementError
MeasurementParsingResult
PlateAnalysisCtxFactory
ThreadPool
Worker
get_thread_pool()
usage()
- omero.util.pydict_text_io module
- omero.util.roi_handling_utils module
- omero.util.script_utils module
- omero.util.sessions module
- omero.util.temp_files module
- omero.util.text module
- omero.util.tiles module
- omero.util.upgrade_check module
- Module contents
Dependency
Environment
Resources
Servant
Server
ServerContext
SimpleServant
StreamRedirect
add_grid_object()
configure_logging()
configure_server_logging()
create_admin_session()
edit_path()
get_omero_user_cache_dir()
get_omero_userdir()
get_user()
get_user_dir()
internal_service_factory()
load_dotted_class()
long_to_path()
make_logname()
tail_lines()
- Submodules
Submodules¶
- omero.all module
- omero.callbacks module
CmdCallbackI
CmdCallbackI.block()
CmdCallbackI.close()
CmdCallbackI.finished()
CmdCallbackI.getResponse()
CmdCallbackI.getStatus()
CmdCallbackI.getStatusOrThrow()
CmdCallbackI.initialPoll()
CmdCallbackI.isCancelled()
CmdCallbackI.isFailure()
CmdCallbackI.loop()
CmdCallbackI.onFinished()
CmdCallbackI.poll()
CmdCallbackI.step()
ProcessCallbackI
adapter_and_category()
- omero.cli module
BaseControl
CLI
CLI.PluginsLoaded
CLI.assertRC()
CLI.call()
CLI.close()
CLI.completedefault()
CLI.completenames()
CLI.configure_plugins()
CLI.conn()
CLI.die()
CLI.execute()
CLI.exit()
CLI.get_client()
CLI.get_config_property_lines()
CLI.get_event_context()
CLI.initData()
CLI.invoke()
CLI.invokeloop()
CLI.loadpath()
CLI.loadplugins()
CLI.onecmd()
CLI.parsePropertyFile()
CLI.popen()
CLI.postcmd()
CLI.postloop()
CLI.readDefaults()
CLI.register()
CLI.register_only()
CLI.rv
CLI.set_client()
CLI.set_event_context()
CLI.waitForPlugins()
CmdControl
Context
DiagnosticsControl
DirectoryType
Error
ExceptionHandler
ExistingFile
ExperimenterArg
ExperimenterGroupArg
GraphArg
GraphControl
HelpFormatter
NewFileType
NonZeroReturnCode
Parser
ProxyStringType
ServiceManagerMixin
UserGroupControl
UserGroupControl.add_group_arguments()
UserGroupControl.add_id_name_arguments()
UserGroupControl.add_single_group_argument()
UserGroupControl.add_single_user_argument()
UserGroupControl.add_user_and_group_arguments()
UserGroupControl.add_user_arguments()
UserGroupControl.addownersbyid()
UserGroupControl.addusersbyid()
UserGroupControl.error_ambiguous_group()
UserGroupControl.error_ambiguous_user()
UserGroupControl.error_invalid_group()
UserGroupControl.error_invalid_groupid()
UserGroupControl.error_invalid_user()
UserGroupControl.error_invalid_userid()
UserGroupControl.error_no_group_found()
UserGroupControl.error_no_input_group()
UserGroupControl.error_no_input_user()
UserGroupControl.error_no_user_found()
UserGroupControl.find_group()
UserGroupControl.find_group_by_id()
UserGroupControl.find_group_by_name()
UserGroupControl.find_user()
UserGroupControl.find_user_by_id()
UserGroupControl.find_user_by_name()
UserGroupControl.get_single_user_group()
UserGroupControl.get_users_groups()
UserGroupControl.getmemberids()
UserGroupControl.getownerids()
UserGroupControl.getuserids()
UserGroupControl.list_groups()
UserGroupControl.list_users()
UserGroupControl.output_groups_list()
UserGroupControl.output_users_list()
UserGroupControl.removeownersbyid()
UserGroupControl.removeusersbyid()
WriteOnceNamespace
admin_only()
argv()
cli_login()
- omero.clients module
BaseClient
BaseClient.CallbackI
BaseClient.closeSession()
BaseClient.createClient()
BaseClient.createSession()
BaseClient.destroySession()
BaseClient.download()
BaseClient.enableKeepAlive()
BaseClient.getAdapter()
BaseClient.getCategory()
BaseClient.getCommunicator()
BaseClient.getContext()
BaseClient.getDefaultBlockSize()
BaseClient.getImplicitContext()
BaseClient.getInput()
BaseClient.getInputKeys()
BaseClient.getInputs()
BaseClient.getManagedRepository()
BaseClient.getOutput()
BaseClient.getOutputKeys()
BaseClient.getOutputs()
BaseClient.getProperties()
BaseClient.getProperty()
BaseClient.getPropertyMap()
BaseClient.getRouter()
BaseClient.getSession()
BaseClient.getSessionId()
BaseClient.getStatefulServices()
BaseClient.isSecure()
BaseClient.joinSession()
BaseClient.killSession()
BaseClient.onHeartbeat()
BaseClient.onSessionClosed()
BaseClient.onShutdownIn()
BaseClient.parseAndSetInt()
BaseClient.setAgent()
BaseClient.setIP()
BaseClient.setInput()
BaseClient.setOutput()
BaseClient.sha1()
BaseClient.startKeepAlive()
BaseClient.stopKeepAlive()
BaseClient.submit()
BaseClient.upload()
BaseClient.waitOnCmd()
BaseClient.write_stream()
- omero.columns module
- omero.config module
- omero.conversions module
- omero.hdfstorageV2 module
- omero.java module
- omero.main module
- omero.min module
- omero.processor module
MATLABProcessI
ProcessI
ProcessI.Popen
ProcessI.activate()
ProcessI.allcallbacks()
ProcessI.alreadyDone()
ProcessI.callback_cast
ProcessI.callbacks
ProcessI.cleanup_output()
ProcessI.cleanup_tmpdir()
ProcessI.command()
ProcessI.deactivate()
ProcessI.final_status
ProcessI.interpreter
ProcessI.isActive()
ProcessI.isFinished()
ProcessI.isRunning()
ProcessI.iskill
ProcessI.make_config()
ProcessI.make_env()
ProcessI.make_files()
ProcessI.omero_home
ProcessI.params
ProcessI.pid
ProcessI.popen
ProcessI.properties
ProcessI.rcode
ProcessI.set_job_status()
ProcessI.started
ProcessI.status()
ProcessI.stopped
ProcessI.tmp_client()
ProcessI.upload_output()
ProcessI.uuid
ProcessI.wasActivated()
ProcessorI
ProcessorI.accepts_list
ProcessorI.category
ProcessorI.find_launcher()
ProcessorI.internal_session()
ProcessorI.lookup()
ProcessorI.parseJob()
ProcessorI.process()
ProcessorI.processJob()
ProcessorI.register_session()
ProcessorI.requestRunning()
ProcessorI.setProxy()
ProcessorI.use_session
ProcessorI.user_client()
ProcessorI.willAccept()
UseSessionHolder
WithGroup
usermode_processor()
with_context()
- omero.rtypes module
- omero.scripts module
Bool
Color
Double
Float
Int
List
Long
Map
MissingInputs
Object
ParseExit
Plane
Point
Set
String
Type
check_boundaries()
check_values()
client()
compare_proto()
error_msg()
expand()
group_params()
handleParse()
parse_file()
parse_input()
parse_inputs()
parse_text()
set_input()
validate_inputs()
wait()
- omero.tables module