Phriction Projects Wikis Bioimaging And Optics Platform Image Processing OMERO Managing data History Version 2 vs 11
Version 2 vs 11
Version 2 vs 11
Content Changes
Content Changes
= Data management in OMERO.web =
== Manage Images in Datasets/Projects ==
# You can **organize the data** in the left-hand side tree by creating new Projects and Datasets. You can link the Images to the new or existing Datasets and Datasets to new or existing Projects. For HCS data, you can create new Screens and link Plates to these Screens.
# **Move your data**: Drag and drop Images between Datasets and Datasets between Projects. For HCS data, drag and drop Plates between Screens.
# **Copy Images**: using the right-click context menu:
-- Select the Images (resp. Dataset) to be copied, then right-click and click {nav Edit > Copy Link}.
-- Select the Dataset (resp. Project) you want to copy the Images (resp. Dataset) to, right-click and click on {nav Edit > Paste Link}.
{F18235014, layout=inline, width=300} {F18235018, layout=inline, width=300}
WARNING: The **Copy Link** feature will only create new links between an Image and a Dataset, so that one Image becomes linked to multiple Datasets. **This does not create a new independent copy of the Image**. The only ways to create a fully independent copy in OMERO is to use the [[ https://omero-guides.readthedocs.io/en/latest/introduction/docs/data-management.html#duplicatecli | Duplicate feature (CLI) ]] or to re-import the file.
If you delete one of the Datasets, any Images within it that are linked to other Datasets will be retained. Nevertheless,** if you directly select and delete an Image that has been copied from another Dataset it will be deleted and lost from both Datasets**. There is a clear warning in the OMERO.web when you try to delete such a doubly linked Image, see screenshot below:
{F18234860, size=full}
== Move data between groups ==
In OMERO, Users are organized in Groups. The Groups allow a level of viewing and cooperation between the members of the group which can be adjusted by changing the permissions level on that group. A User can be a member and have their data in one or more Groups. Thus it is sometimes necessary to move the data between groups. This action can be done by the owners of the data themselves or by an administrator or an administrator with restricted privileges.
== Change ownership of data (for PIs) ==
Every object in OMERO has a single, particular user as an owner. The ownership of objects can be changed but only if you are an Administrator, Administrator with restricted privileges or a Group owner. If you are a PI but are not the Group owner of your lab's OMERO group, please contact [[mailto:claire.stoffel@epfl.ch | Claire Stoffel]].
# Select a Project, Dataset or Images in the left-hand side tree of OMERO.web.
# Right-click and in the context menu, select {nav Change owner}.
# In the new dialog, select the new owner of the data.
# Wait until the {nav Checking which objects will be moved} is done and the spinner vanishes. {F18235112, float, layout=right, width=360} This might take time depending on the number of objects you are attempting to change owner of. For example, a large number of ROIs on the images can be a cause of longer waiting times.
# Pick the new owner and check the list of objects which are supposed to be transferred to the new owner. Also consider the possible loss of linkage between objects listed in the {nav Will be removed from} line. Click {nav OK}.
{F18235158, width=300}
---
{icon hand-o-right} [[ https://c4science.ch/w/bioimaging_and_optics_platform_biop/image-processing/omero/figures/ | NEXT STEP: Creating Figures ]]
---
https://wiki-biop.epfl.ch/en/Image_Storage/OMERO/Managing_Data
= Data management in OMERO.web =
== Manage Images in Datasets/Projects ==
# You can **organize the data** in the left-hand side tree by creating new Projects and Datasets. You can link the Images to the new or existing Datasets and Datasets to new or existing Projects. For HCS data, you can create new Screens and link Plates to these Screens.
# **Move your data**: Drag and drop Images between Datasets and Datasets between Projects. For HCS data, drag and drop Plates between Screens.
# **Copy Images**: using the right-click context menu:
-- Select the Images (resp. Dataset) to be copied, then right-click and click {nav Edit > Copy Link}.
-- Select the Dataset (resp. Project) you want to copy the Images (resp. Dataset) to, right-click and click on {nav Edit > Paste Link}.
{F18235014, layout=inline, width=300} {F18235018, layout=inline, width=300}
WARNING: The **Copy Link** feature will only create new links between an Image and a Dataset, so that one Image becomes linked to multiple Datasets. **This does not create a new independent copy of the Image**. The only ways to create a fully independent copy in OMERO is to use the [[ https://omero-guides.readthedocs.io/en/latest/introduction/docs/data-management.html#duplicatecli | Duplicate feature (CLI) ]] or to re-import the file.
If you delete one of the Datasets, any Images within it that are linked to other Datasets will be retained. Nevertheless,** if you directly select and delete an Image that has been copied from another Dataset it will be deleted and lost from both Datasets**. There is a clear warning in the OMERO.web when you try to delete such a doubly linked Image, see screenshot below:
{F18234860, size=full}
== Move data between groups ==
In OMERO, Users are organized in Groups. The Groups allow a level of viewing and cooperation between the members of the group which can be adjusted by changing the permissions level on that group. A User can be a member and have their data in one or more Groups. Thus it is sometimes necessary to move the data between groups. This action can be done by the owners of the data themselves or by an administrator or an administrator with restricted privileges.
== Change ownership of data (for PIs) ==
Every object in OMERO has a single, particular user as an owner. The ownership of objects can be changed but only if you are an Administrator, Administrator with restricted privileges or a Group owner. If you are a PI but are not the Group owner of your lab's OMERO group, please contact [[mailto:claire.stoffel@epfl.ch | Claire Stoffel]].
# Select a Project, Dataset or Images in the left-hand side tree of OMERO.web.
# Right-click and in the context menu, select {nav Change owner}.
# In the new dialog, select the new owner of the data.
# Wait until the {nav Checking which objects will be moved} is done and the spinner vanishes. {F18235112, float, layout=right, width=360} This might take time depending on the number of objects you are attempting to change owner of. For example, a large number of ROIs on the images can be a cause of longer waiting times.
# Pick the new owner and check the list of objects which are supposed to be transferred to the new owner. Also consider the possible loss of linkage between objects listed in the {nav Will be removed from} line. Click {nav OK}.
{F18235158, width=300}
---
{icon hand-o-right} [[ https://c4science.ch/w/bioimaging_and_optics_platform_biop/image-processing/omero/figures/ | NEXT STEP: Creating Figures ]]
---
https://wiki-biop.epfl.ch/en/Image_Storage/OMERO/Managing_Data
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