How do I install Cellprofiler nodes for KNIME?

hungerfordwm · November 15, 2018, 6:58pm

I am trying to install cellprofiler nodes for KNIME and found the following webpage with instructions:

I followed the instructions which was to enable the Stable Community Contributions software site in KNIME’s preferences. Once I did that, I should have been able to install the CellProfiler extensions in the usual way. However, before cellprofiler installed I received this error message:

Cannot complete the install because one or more required items could not be found.
Software being installed: KNIME Image Processing - CellProfiler Integration 0.3.3.v201712041656 (org.knime.knip.cellprofiler.feature.feature.group 0.3.3.v201712041656)
Missing requirement: KNIME CellProfiler Integration 0.3.3.v201712041656 (org.knime.knip.cellprofiler 0.3.3.v201712041656) requires ‘bundle org.knime.knip.base [1.6.0,2.0.0)’ but it could not be found
Cannot satisfy dependency:

I was not able to see the CellProfiler nodes under the community nodes after a restart.

Please advise….

christian.birkhold · November 15, 2018, 9:02pm

Hi @hungerfordwm,

did you manage to install the KNIME Image Processing Extension itself. The CellProfiler Integration bases on this extension. You can install it via the Community Contributions (Trusted) update-site. Once this is installed, you should be able to seamlessly install the CellProfiler extension. Also, on our example server, you can find several example workflows for CellProfiler. Out of curiosity: Which CP pipeline do you want to integrate? Sometimes you can build similar workflows with KNIME Image Processing as well, which might be easier to integrate with the rest of KNIME. We’re happy to help and give advise.

@gab1one can provide more details about the currently supported CellProfiler versions?

Best,

Christian

hungerfordwm · November 15, 2018, 9:28pm

Christian,

When I click on “Install KNIME Extensions” I see a new box open, and in the bottom right side of the box it has a hyperlink to see what is already installed. I click on that, and I can see in the list of things installed:

Source for KNIME Image Processing	1.7.0.201810300650	org.knime.knip.source.feature.feature.group	University of Konstanz / KNIME
Source for KNIME Image Processing - CellProfiler Integration	0.3.3.v201712041656	org.knime.knip.cellprofiler.source.feature.feature.group	Broad Institute / University of Konstanz

However, when I look for cellprofiler in the node repository I cannot find it. Please advise…

christian.birkhold · November 15, 2018, 9:33pm

@hungerfordwm,

it seems that you only installed the source code of the extensions. Can you find the “Image Reader” node? In case you do, can you provide us with your log file? This will help us finding the problem.

Best,

Christian

hungerfordwm · November 15, 2018, 9:40pm

I do not have something labelled as “Image Reader” in the node repository.

hungerfordwm · November 15, 2018, 9:46pm

Christian,

I’m assuming that when you are interested in the log files you mean the error log files, correct? I did seem to find them or something that looks like them. Here are what I think are the error log files for today, November 15th…

!ENTRY org.eclipse.equinox.p2.core 4 0 2018-11-15 13:26:41.212
!MESSAGE Exception during event notification
!STACK 0
java.lang.IllegalArgumentException: Location must be absolute: …
at org.eclipse.equinox.internal.p2.repository.helpers.AbstractRepositoryManager.checkValidLocation(AbstractRepositoryManager.java:749)
at org.eclipse.equinox.internal.p2.repository.helpers.AbstractRepositoryManager.contains(AbstractRepositoryManager.java:253)
at org.eclipse.equinox.internal.p2.repository.helpers.AbstractRepositoryManager.addRepository(AbstractRepositoryManager.java:166)
at org.eclipse.equinox.internal.p2.repository.helpers.AbstractRepositoryManager.notify(AbstractRepositoryManager.java:820)
at org.eclipse.equinox.internal.p2.core.ProvisioningEventBus.dispatchEvent(ProvisioningEventBus.java:108)
at org.eclipse.equinox.internal.p2.core.ProvisioningEventBus.dispatchEvent(ProvisioningEventBus.java:1)
at org.eclipse.osgi.framework.eventmgr.EventManager.dispatchEvent(EventManager.java:230)
at org.eclipse.osgi.framework.eventmgr.EventManager$EventThread.run(EventManager.java:340)

!ENTRY org.eclipse.equinox.p2.core 4 0 2018-11-15 13:26:41.213
!MESSAGE Exception during event notification
!STACK 0
java.lang.IllegalArgumentException: Location must be absolute: …
at org.eclipse.equinox.internal.p2.repository.helpers.AbstractRepositoryManager.checkValidLocation(AbstractRepositoryManager.java:749)
at org.eclipse.equinox.internal.p2.repository.helpers.AbstractRepositoryManager.contains(AbstractRepositoryManager.java:253)
at org.eclipse.equinox.internal.p2.repository.helpers.AbstractRepositoryManager.addRepository(AbstractRepositoryManager.java:166)
at org.eclipse.equinox.internal.p2.repository.helpers.AbstractRepositoryManager.notify(AbstractRepositoryManager.java:820)
at org.eclipse.equinox.internal.p2.core.ProvisioningEventBus.dispatchEvent(ProvisioningEventBus.java:108)
at org.eclipse.equinox.internal.p2.core.ProvisioningEventBus.dispatchEvent(ProvisioningEventBus.java:1)
at org.eclipse.osgi.framework.eventmgr.EventManager.dispatchEvent(EventManager.java:230)
at org.eclipse.osgi.framework.eventmgr.EventManager$EventThread.run(EventManager.java:340)

!ENTRY org.eclipse.equinox.p2.operations 4 10053 2018-11-15 13:29:37.810
!MESSAGE Operation details
!SUBENTRY 1 org.eclipse.equinox.p2.director 4 10053 2018-11-15 13:29:37.810
!MESSAGE Cannot complete the install because one or more required items could not be found.
!SUBENTRY 2 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:29:37.810
!MESSAGE Software being installed: KNIME Image Processing - CellProfiler Integration 0.3.3.v201712041656 (org.knime.knip.cellprofiler.feature.feature.group 0.3.3.v201712041656)
!SUBENTRY 2 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:29:37.810
!MESSAGE Missing requirement: KNIME CellProfiler Integration 0.3.3.v201712041656 (org.knime.knip.cellprofiler 0.3.3.v201712041656) requires ‘bundle org.knime.knip.base [1.6.0,2.0.0)’ but it could not be found
!SUBENTRY 2 org.eclipse.equinox.p2.director 4 1 2018-11-15 13:29:37.810
!MESSAGE Cannot satisfy dependency:
!SUBENTRY 3 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:29:37.810
!MESSAGE From: KNIME Image Processing - CellProfiler Integration 0.3.3.v201712041656 (org.knime.knip.cellprofiler.feature.feature.group 0.3.3.v201712041656)
!SUBENTRY 3 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:29:37.810
!MESSAGE To: org.knime.knip.cellprofiler [0.3.3.v201712041656]

!ENTRY org.eclipse.equinox.p2.operations 4 10053 2018-11-15 13:29:37.816
!MESSAGE Operation details
!SUBENTRY 1 org.eclipse.equinox.p2.director 4 10053 2018-11-15 13:29:37.817
!MESSAGE Cannot complete the install because one or more required items could not be found.
!SUBENTRY 2 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:29:37.817
!MESSAGE Software being installed: KNIME Image Processing - CellProfiler Integration 0.3.3.v201712041656 (org.knime.knip.cellprofiler.feature.feature.group 0.3.3.v201712041656)
!SUBENTRY 2 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:29:37.817
!MESSAGE Missing requirement: KNIME CellProfiler Integration 0.3.3.v201712041656 (org.knime.knip.cellprofiler 0.3.3.v201712041656) requires ‘bundle org.knime.knip.base [1.6.0,2.0.0)’ but it could not be found
!SUBENTRY 2 org.eclipse.equinox.p2.director 4 1 2018-11-15 13:29:37.817
!MESSAGE Cannot satisfy dependency:
!SUBENTRY 3 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:29:37.817
!MESSAGE From: KNIME Image Processing - CellProfiler Integration 0.3.3.v201712041656 (org.knime.knip.cellprofiler.feature.feature.group 0.3.3.v201712041656)
!SUBENTRY 3 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:29:37.817
!MESSAGE To: org.knime.knip.cellprofiler [0.3.3.v201712041656]

!ENTRY org.eclipse.equinox.p2.operations 4 10053 2018-11-15 13:29:37.829
!MESSAGE Operation details
!SUBENTRY 1 org.eclipse.equinox.p2.director 4 10053 2018-11-15 13:29:37.829
!MESSAGE Cannot complete the install because one or more required items could not be found.
!SUBENTRY 2 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:29:37.829
!MESSAGE Software being installed: KNIME Image Processing - CellProfiler Integration 0.3.3.v201712041656 (org.knime.knip.cellprofiler.feature.feature.group 0.3.3.v201712041656)
!SUBENTRY 2 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:29:37.829
!MESSAGE Missing requirement: KNIME CellProfiler Integration 0.3.3.v201712041656 (org.knime.knip.cellprofiler 0.3.3.v201712041656) requires ‘bundle org.knime.knip.base [1.6.0,2.0.0)’ but it could not be found
!SUBENTRY 2 org.eclipse.equinox.p2.director 4 1 2018-11-15 13:29:37.829
!MESSAGE Cannot satisfy dependency:
!SUBENTRY 3 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:29:37.829
!MESSAGE From: KNIME Image Processing - CellProfiler Integration 0.3.3.v201712041656 (org.knime.knip.cellprofiler.feature.feature.group 0.3.3.v201712041656)
!SUBENTRY 3 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:29:37.829
!MESSAGE To: org.knime.knip.cellprofiler [0.3.3.v201712041656]

!ENTRY org.eclipse.equinox.p2.operations 4 10053 2018-11-15 13:32:56.239
!MESSAGE Operation details
!SUBENTRY 1 org.eclipse.equinox.p2.director 4 10053 2018-11-15 13:32:56.239
!MESSAGE Cannot complete the install because one or more required items could not be found.
!SUBENTRY 2 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:32:56.239
!MESSAGE Software being installed: KNIME Image Processing - CellProfiler Integration 0.3.3.v201712041656 (org.knime.knip.cellprofiler.feature.feature.group 0.3.3.v201712041656)
!SUBENTRY 2 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:32:56.239
!MESSAGE Missing requirement: KNIME CellProfiler Integration 0.3.3.v201712041656 (org.knime.knip.cellprofiler 0.3.3.v201712041656) requires ‘bundle org.knime.knip.base [1.6.0,2.0.0)’ but it could not be found
!SUBENTRY 2 org.eclipse.equinox.p2.director 4 1 2018-11-15 13:32:56.239
!MESSAGE Cannot satisfy dependency:
!SUBENTRY 3 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:32:56.239
!MESSAGE From: KNIME Image Processing - CellProfiler Integration 0.3.3.v201712041656 (org.knime.knip.cellprofiler.feature.feature.group 0.3.3.v201712041656)
!SUBENTRY 3 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:32:56.239
!MESSAGE To: org.knime.knip.cellprofiler [0.3.3.v201712041656]

!ENTRY org.eclipse.equinox.p2.operations 4 10053 2018-11-15 13:32:56.240
!MESSAGE Operation details
!SUBENTRY 1 org.eclipse.equinox.p2.director 4 10053 2018-11-15 13:32:56.240
!MESSAGE Cannot complete the install because one or more required items could not be found.
!SUBENTRY 2 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:32:56.240
!MESSAGE Software being installed: KNIME Image Processing - CellProfiler Integration 0.3.3.v201712041656 (org.knime.knip.cellprofiler.feature.feature.group 0.3.3.v201712041656)
!SUBENTRY 2 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:32:56.240
!MESSAGE Missing requirement: KNIME CellProfiler Integration 0.3.3.v201712041656 (org.knime.knip.cellprofiler 0.3.3.v201712041656) requires ‘bundle org.knime.knip.base [1.6.0,2.0.0)’ but it could not be found
!SUBENTRY 2 org.eclipse.equinox.p2.director 4 1 2018-11-15 13:32:56.240
!MESSAGE Cannot satisfy dependency:
!SUBENTRY 3 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:32:56.240
!MESSAGE From: KNIME Image Processing - CellProfiler Integration 0.3.3.v201712041656 (org.knime.knip.cellprofiler.feature.feature.group 0.3.3.v201712041656)
!SUBENTRY 3 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:32:56.240
!MESSAGE To: org.knime.knip.cellprofiler [0.3.3.v201712041656]
!SESSION 2018-11-15 13:36:29.651 -----------------------------------------------
eclipse.buildId=unknown
java.version=1.8.0_152
java.vendor=Oracle Corporation
BootLoader constants: OS=win32, ARCH=x86_64, WS=win32, NL=en_US
Command-line arguments: -os win32 -ws win32 -arch x86_64 -data file:/C:/Users/WH275/knime-workspace/

!ENTRY org.eclipse.ui 2 0 2018-11-15 13:36:40.812
!MESSAGE Warnings while parsing the key bindings from the ‘org.eclipse.ui.commands’ and ‘org.eclipse.ui.bindings’ extension point
!SUBENTRY 1 org.eclipse.ui 2 0 2018-11-15 13:36:40.812
!MESSAGE Cannot bind to an undefined command: plug-in=‘org.knime.workbench.editor’, id=‘knime.commands.editor.gridSettings’

!ENTRY org.eclipse.equinox.p2.operations 4 10053 2018-11-15 13:38:49.395
!MESSAGE Operation details
!SUBENTRY 1 org.eclipse.equinox.p2.director 4 10053 2018-11-15 13:38:49.395
!MESSAGE Cannot complete the install because one or more required items could not be found.
!SUBENTRY 2 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:38:49.395
!MESSAGE Software being installed: KNIME Image Processing - ImageJ Integration (Beta) 0.11.5.v201807111030 (org.knime.knip.imagej.feature.feature.group 0.11.5.v201807111030)
!SUBENTRY 2 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:38:49.395
!MESSAGE Missing requirement: ImageJ1 0.11.5.v201807111030 (org.knime.knip.imagej1 0.11.5.v201807111030) requires ‘bundle org.knime.knip.io [1.7.0,2.0.0)’ but it could not be found
!SUBENTRY 2 org.eclipse.equinox.p2.director 4 1 2018-11-15 13:38:49.395
!MESSAGE Cannot satisfy dependency:
!SUBENTRY 3 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:38:49.395
!MESSAGE From: KNIME Image Processing - ImageJ Integration (Beta) 0.11.5.v201807111030 (org.knime.knip.imagej.feature.feature.group 0.11.5.v201807111030)
!SUBENTRY 3 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:38:49.395
!MESSAGE To: org.knime.knip.imagej1 [0.11.5.v201807111030]

!ENTRY org.eclipse.equinox.p2.operations 4 10053 2018-11-15 13:38:49.408
!MESSAGE Operation details
!SUBENTRY 1 org.eclipse.equinox.p2.director 4 10053 2018-11-15 13:38:49.408
!MESSAGE Cannot complete the install because one or more required items could not be found.
!SUBENTRY 2 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:38:49.408
!MESSAGE Software being installed: KNIME Image Processing - ImageJ Integration (Beta) 0.11.5.v201807111030 (org.knime.knip.imagej.feature.feature.group 0.11.5.v201807111030)
!SUBENTRY 2 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:38:49.408
!MESSAGE Missing requirement: ImageJ1 0.11.5.v201807111030 (org.knime.knip.imagej1 0.11.5.v201807111030) requires ‘bundle org.knime.knip.io [1.7.0,2.0.0)’ but it could not be found
!SUBENTRY 2 org.eclipse.equinox.p2.director 4 1 2018-11-15 13:38:49.408
!MESSAGE Cannot satisfy dependency:
!SUBENTRY 3 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:38:49.408
!MESSAGE From: KNIME Image Processing - ImageJ Integration (Beta) 0.11.5.v201807111030 (org.knime.knip.imagej.feature.feature.group 0.11.5.v201807111030)
!SUBENTRY 3 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:38:49.408
!MESSAGE To: org.knime.knip.imagej1 [0.11.5.v201807111030]

!ENTRY org.eclipse.equinox.p2.operations 4 10053 2018-11-15 13:38:49.446
!MESSAGE Operation details
!SUBENTRY 1 org.eclipse.equinox.p2.director 4 10053 2018-11-15 13:38:49.447
!MESSAGE Cannot complete the install because one or more required items could not be found.
!SUBENTRY 2 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:38:49.447
!MESSAGE Software being installed: KNIME Image Processing - ImageJ Integration (Beta) 0.11.5.v201807111030 (org.knime.knip.imagej.feature.feature.group 0.11.5.v201807111030)
!SUBENTRY 2 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:38:49.447
!MESSAGE Missing requirement: ImageJ1 0.11.5.v201807111030 (org.knime.knip.imagej1 0.11.5.v201807111030) requires ‘bundle org.knime.knip.io [1.7.0,2.0.0)’ but it could not be found
!SUBENTRY 2 org.eclipse.equinox.p2.director 4 1 2018-11-15 13:38:49.447
!MESSAGE Cannot satisfy dependency:
!SUBENTRY 3 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:38:49.447
!MESSAGE From: KNIME Image Processing - ImageJ Integration (Beta) 0.11.5.v201807111030 (org.knime.knip.imagej.feature.feature.group 0.11.5.v201807111030)
!SUBENTRY 3 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:38:49.447
!MESSAGE To: org.knime.knip.imagej1 [0.11.5.v201807111030]

!ENTRY org.eclipse.equinox.p2.operations 4 10053 2018-11-15 13:38:49.447
!MESSAGE Operation details
!SUBENTRY 1 org.eclipse.equinox.p2.director 4 10053 2018-11-15 13:38:49.447
!MESSAGE Cannot complete the install because one or more required items could not be found.
!SUBENTRY 2 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:38:49.447
!MESSAGE Software being installed: KNIME Image Processing - ImageJ Integration (Beta) 0.11.5.v201807111030 (org.knime.knip.imagej.feature.feature.group 0.11.5.v201807111030)
!SUBENTRY 2 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:38:49.447
!MESSAGE Missing requirement: ImageJ1 0.11.5.v201807111030 (org.knime.knip.imagej1 0.11.5.v201807111030) requires ‘bundle org.knime.knip.io [1.7.0,2.0.0)’ but it could not be found
!SUBENTRY 2 org.eclipse.equinox.p2.director 4 1 2018-11-15 13:38:49.447
!MESSAGE Cannot satisfy dependency:
!SUBENTRY 3 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:38:49.447
!MESSAGE From: KNIME Image Processing - ImageJ Integration (Beta) 0.11.5.v201807111030 (org.knime.knip.imagej.feature.feature.group 0.11.5.v201807111030)
!SUBENTRY 3 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:38:49.447
!MESSAGE To: org.knime.knip.imagej1 [0.11.5.v201807111030]
!SESSION 2018-11-15 13:39:51.614 -----------------------------------------------
eclipse.buildId=unknown
java.version=1.8.0_152
java.vendor=Oracle Corporation
BootLoader constants: OS=win32, ARCH=x86_64, WS=win32, NL=en_US
Command-line arguments: -os win32 -ws win32 -arch x86_64 -data file:/C:/Users/WH275/knime-workspace/

!ENTRY org.eclipse.ui 2 0 2018-11-15 13:40:01.686
!MESSAGE Warnings while parsing the key bindings from the ‘org.eclipse.ui.commands’ and ‘org.eclipse.ui.bindings’ extension point
!SUBENTRY 1 org.eclipse.ui 2 0 2018-11-15 13:40:01.687
!MESSAGE Cannot bind to an undefined command: plug-in=‘org.knime.workbench.editor’, id=‘knime.commands.editor.gridSettings’

!ENTRY org.eclipse.equinox.p2.operations 4 10053 2018-11-15 13:42:51.488
!MESSAGE Operation details
!SUBENTRY 1 org.eclipse.equinox.p2.director 4 10053 2018-11-15 13:42:51.488
!MESSAGE Cannot complete the install because one or more required items could not be found.
!SUBENTRY 2 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:42:51.488
!MESSAGE Software being installed: KNIME Image Processing - CellProfiler Integration 0.3.3.v201712041656 (org.knime.knip.cellprofiler.feature.feature.group 0.3.3.v201712041656)
!SUBENTRY 2 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:42:51.488
!MESSAGE Missing requirement: KNIME CellProfiler Integration 0.3.3.v201712041656 (org.knime.knip.cellprofiler 0.3.3.v201712041656) requires ‘bundle org.knime.knip.base [1.6.0,2.0.0)’ but it could not be found
!SUBENTRY 2 org.eclipse.equinox.p2.director 4 1 2018-11-15 13:42:51.488
!MESSAGE Cannot satisfy dependency:
!SUBENTRY 3 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:42:51.488
!MESSAGE From: KNIME Image Processing - CellProfiler Integration 0.3.3.v201712041656 (org.knime.knip.cellprofiler.feature.feature.group 0.3.3.v201712041656)
!SUBENTRY 3 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:42:51.488
!MESSAGE To: org.knime.knip.cellprofiler [0.3.3.v201712041656]

!ENTRY org.eclipse.equinox.p2.operations 4 10053 2018-11-15 13:42:51.499
!MESSAGE Operation details
!SUBENTRY 1 org.eclipse.equinox.p2.director 4 10053 2018-11-15 13:42:51.499
!MESSAGE Cannot complete the install because one or more required items could not be found.
!SUBENTRY 2 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:42:51.499
!MESSAGE Software being installed: KNIME Image Processing - CellProfiler Integration 0.3.3.v201712041656 (org.knime.knip.cellprofiler.feature.feature.group 0.3.3.v201712041656)
!SUBENTRY 2 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:42:51.499
!MESSAGE Missing requirement: KNIME CellProfiler Integration 0.3.3.v201712041656 (org.knime.knip.cellprofiler 0.3.3.v201712041656) requires ‘bundle org.knime.knip.base [1.6.0,2.0.0)’ but it could not be found
!SUBENTRY 2 org.eclipse.equinox.p2.director 4 1 2018-11-15 13:42:51.499
!MESSAGE Cannot satisfy dependency:
!SUBENTRY 3 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:42:51.499
!MESSAGE From: KNIME Image Processing - CellProfiler Integration 0.3.3.v201712041656 (org.knime.knip.cellprofiler.feature.feature.group 0.3.3.v201712041656)
!SUBENTRY 3 org.eclipse.equinox.p2.director 4 0 2018-11-15 13:42:51.499
!MESSAGE To: org.knime.knip.cellprofiler [0.3.3.v201712041656]
!SESSION 2018-11-15 16:20:51.777 -----------------------------------------------
eclipse.buildId=unknown
java.version=1.8.0_152
java.vendor=Oracle Corporation
BootLoader constants: OS=win32, ARCH=x86_64, WS=win32, NL=en_US
Command-line arguments: -os win32 -ws win32 -arch x86_64 -data file:/C:/Users/WH275/knime-workspace/

!ENTRY org.eclipse.ui 2 0 2018-11-15 16:21:01.037
!MESSAGE Warnings while parsing the key bindings from the ‘org.eclipse.ui.commands’ and ‘org.eclipse.ui.bindings’ extension point
!SUBENTRY 1 org.eclipse.ui 2 0 2018-11-15 16:21:01.037
!MESSAGE Cannot bind to an undefined command: plug-in=‘org.knime.workbench.editor’, id=‘knime.commands.editor.gridSettings’

gab1one · November 16, 2018, 9:01am

Hi @hungerfordwm,
can you try re-installing the extensions? Go to Help-> About KNIME Analytics Platform -> Installation Details, and uninstall everything with KNIME Image Processing in it’s name. Restart KNIME AP then try installing Cellprofiler again.

best,
Gabriel

hungerfordwm · November 16, 2018, 2:37pm

I was successful in uninstallation. However, upon re-installation I received this error box:

I kept clicking next, and went ahead with the reinstallation. Restarted KNIME for the changes to take effect. AND IT SEEMS TO HAVE WORKED!!!

Thanks to everyone who helped me out.

Will

system · June 2, 2023, 9:13pm

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