Skip to content

Commit 83cc1c6

Browse files
authored
Update CellProfiler installation instructions (#1811)
- installing cellprofiler from source is only required if the plugin uses packages not already available within cellprofiler Signed-off-by: Nodar Gogoberidze <[email protected]>
1 parent b205e92 commit 83cc1c6

File tree

1 file changed

+10
-7
lines changed

1 file changed

+10
-7
lines changed

plugins/cellprofiler/README.md

Lines changed: 10 additions & 7 deletions
Original file line numberDiff line numberDiff line change
@@ -29,16 +29,19 @@ Users can find supported applications in the [sample-apps](../../sample-apps/vis
2929

3030
### Installing CellProfiler
3131

32-
To use MONAILabel with CellProfiler, you first need to install CellProfiler from source code following the installation part of [CellProfiler WiKi](https://github.com/CellProfiler/CellProfiler/wiki). Once you have CellProfiler installed, you can install the MONAILabel plugin as shown in the `Install MONAI Label Extension` part.
32+
Since this plugin does not require any external dependencies, except those already available in CellProfiler itself, users may choose to download and use a pre-built version, [available here](https://cellprofiler.org/releases).
3333

34-
Please note these tips when installing the software:
35-
1. After cloned the source code, you must switch to a specific version tag of the repo to start installation.
36-
1. For Macbooks with Apple Silicon, please note [this issue](https://github.com/CellProfiler/CellProfiler/issues/4932) before you start to install.
37-
1. Before actually running the command `pip install -e .`, you may need to install numpy if it doesn't exist in your environment.
34+
Alternatively, you may install CellProfiler from source code following the installation part of [CellProfiler WiKi](https://github.com/CellProfiler/CellProfiler/wiki).
35+
36+
Once you have CellProfiler installed, you can install the MONAILabel plugin as shown in the `Install MONAI Label Extension` part.
3837

3938
### Install MONAI Label Extension
40-
1. Save the runvista2d.py file to a local path.
41-
1. Start CellProfiler from CLI, open the `File-->preferences` option and fill in the `CellProfiler plugin directory` parameter with your local path.
39+
1. Save the `runvista2d.py` file to a local path.
40+
1. Start CellProfiler by opening the application or .exe (if using pre-built) or by launching from CLI (if installed from source), open the `File-->preferences` option and fill in the `CellProfiler plugin directory` parameter with your local path.
41+
42+
Alternatively,
43+
1. Download/Clone the official CellProfiler-plugins repository [available here](https://github.com/CellProfiler/CellProfiler-plugins), which contains `runvista2d.py`.
44+
1. Start CellProfiler by opening the application or .exe (if using pre-built) or by launching from CLI (if installed from source), open the `File-->preferences` option and fill in the `CellProfiler plugin directory` parameter with the path to the `<path>/<to>/CellProfiler-Plugins/active_plugins`.
4245

4346
## Using the Plugin
4447

0 commit comments

Comments
 (0)