Extensions frozen

[JMEjby]

Hi there,

I am having some problems with using NetLogo extensions. I am extending an existing model using the rnd and r extensions. I have succesfully run previous versions of this model. I get this error when adding the r extension: "Error in R-Extension: Error in runOnce (Error #4): java.lang.ClassCastException: class.jdk.internal.loader.ClassLoader$AppClassLoader cannot be cast to class java.net.URLClassLoader (jdk.internal.loader.ClassLoader$AppClassLoader and java.net.URLClassLoader are in module java.base of loader "bootstrap"). I have rJava installed in R. When looking in my files, there is no r folder in my NetLogo folder, and there is no files/folders in the extensions folder either. Yet, in the extensions manager in NetLogo I can see that multiple extensions should be installed including R, rnd, python, CSV etc. I also cannot uninstall and reinstall any of the extensions. I have added some screen recordings for additional details.

It may be multiple separate issues as I can run a version of the model that uses only the rnd extension. It may also be related to some issues on my computer related to Java - any advice on how I can check this would be much appreciated!

Videos

• Unable to uninstall extensions: https://github.com/NetLogo/NetLogo/assets/81433797/7463f8b8-b092-470f-87ab-ed9acf672d15

• Empty extensions folder and no R folder: https://github.com/NetLogo/NetLogo/assets/81433797/42ae5809-14e4-4ae9-898d-63096d6d2796

[brandesNW]

Hi, We are sorry you ran into this problem. I suggest you try out the Simple R extension which has a simple point and click configuration menu for telling the extension about the location on your system of your R install. It is more straightforward to set up than the bundled R extension which requires the manual creation of a configuration file. You can install the Simple R extension using NetLogo's built-in extension manager http://ccl.northwestern.edu/netlogo/docs/extension-manager.html Examples showing how to use it can be found here https://github.com/NetLogo/SimpleR-Extension/blob/main/README.md#using. Information on switching to Simple R from the bundled R extension is here https://github.com/NetLogo/SimpleR-Extension#transitioning-from-the-old-r-extension. Note on uninstalling – extensions such as the R extension that are installed when you first open a downloaded version of NetLogo cannot be uninstalled. If you install an additional extension you will be able to uninstall it. Aaron

…

-- Aaron Brandes, Software Developer Center for Connected Learning and Computer-Based Modeling From: JMEjby ***@***.***> Date: Wednesday, January 3, 2024 at 7:18 AM To: NetLogo/NetLogo ***@***.***> Cc: Subscribed ***@***.***> Subject: [NetLogo/NetLogo] Extensions frozen (Issue #2203) Hi there, I am having some problems with using NetLogo extensions. I am extending an existing model using the rnd and r extensions. I have succesfully run previous versions of this model. I get this error when adding the r extension: "Error in R-Extension: Error in runOnce (Error #4<https://urldefense.com/v3/__https:/github.com/NetLogo/NetLogo/issues/4__;!!Dq0X2DkFhyF93HkjWTBQKhk!QRub4L9_ILgDc48ElzBujSiBBeBU9UKQ047RY9-2CWU590npOJcomMGoH5Nz82TDijpTQrzL-mEswMgjkjJQPUVm9CDGZNhKfg$>): java.lang.ClassCastException: class.jdk.internal.loader.ClassLoader$AppClassLoader cannot be cast to class java.net.URLClassLoader (jdk.internal.loader.ClassLoader$AppClassLoader and java.net.URLClassLoader are in module java.base of loader "bootstrap"). I have rJava installed in R. When looking in my files, there is no r folder in my NetLogo folder, and there is no files/folders in the extensions folder either. Yet, in the extensions manager in NetLogo I can see that multiple extensions should be installed including R, rnd, python, CSV etc. I also cannot uninstall and reinstall any of the extensions. I have added some screen recordings for additional details. It may be multiple separate issues as I can run a version of the model that uses only the rnd extension. It may also be related to some issues on my computer related to Java - any advice on how I can check this would be much appreciated! Videos * Unable to uninstall extensions: https://github.com/NetLogo/NetLogo/assets/81433797/7463f8b8-b092-470f-87ab-ed9acf672d15<https://urldefense.com/v3/__https:/github.com/NetLogo/NetLogo/assets/81433797/7463f8b8-b092-470f-87ab-ed9acf672d15__;!!Dq0X2DkFhyF93HkjWTBQKhk!QRub4L9_ILgDc48ElzBujSiBBeBU9UKQ047RY9-2CWU590npOJcomMGoH5Nz82TDijpTQrzL-mEswMgjkjJQPUVm9CDvs9nWmA$> * Empty extensions folder and no R folder: https://github.com/NetLogo/NetLogo/assets/81433797/42ae5809-14e4-4ae9-898d-63096d6d2796<https://urldefense.com/v3/__https:/github.com/NetLogo/NetLogo/assets/81433797/42ae5809-14e4-4ae9-898d-63096d6d2796__;!!Dq0X2DkFhyF93HkjWTBQKhk!QRub4L9_ILgDc48ElzBujSiBBeBU9UKQ047RY9-2CWU590npOJcomMGoH5Nz82TDijpTQrzL-mEswMgjkjJQPUVm9CBOB1lu-A$> — Reply to this email directly, view it on GitHub<https://urldefense.com/v3/__https:/github.com/NetLogo/NetLogo/issues/2203__;!!Dq0X2DkFhyF93HkjWTBQKhk!QRub4L9_ILgDc48ElzBujSiBBeBU9UKQ047RY9-2CWU590npOJcomMGoH5Nz82TDijpTQrzL-mEswMgjkjJQPUVm9CDVuBbP2A$>, or unsubscribe<https://urldefense.com/v3/__https:/github.com/notifications/unsubscribe-auth/ANSUO2WP6ZZTOWWJNP3L3BDYMVEAJAVCNFSM6AAAAABBLK6NRSVHI2DSMVQWIX3LMV43ASLTON2WKOZSGA3DGOJSHAYTIOA__;!!Dq0X2DkFhyF93HkjWTBQKhk!QRub4L9_ILgDc48ElzBujSiBBeBU9UKQ047RY9-2CWU590npOJcomMGoH5Nz82TDijpTQrzL-mEswMgjkjJQPUVm9CC1eUQGTg$>. You are receiving this because you are subscribed to this thread.Message ID: ***@***.***>

[brandesNW]

Hi, Were you able to solve your problem by using the Simple R extension? Also I realized that the reason you weren’t seeing the extensions folders is because they are under the folder extensions\.bundled, and files beginning with a “.” are hidden by default in Windows. You can google directions for showing how to display hidden files. * Aaron

…

-- Aaron Brandes, Software Developer Center for Connected Learning and Computer-Based Modeling From: Aaron Andre Brandes ***@***.***> Date: Friday, January 5, 2024 at 12:19 PM To: NetLogo/NetLogo ***@***.***>, NetLogo/NetLogo ***@***.***> Cc: Subscribed ***@***.***> Subject: Re: [NetLogo/NetLogo] Extensions frozen (Issue #2203) Hi, We are sorry you ran into this problem. I suggest you try out the Simple R extension which has a simple point and click configuration menu for telling the extension about the location on your system of your R install. It is more straightforward to set up than the bundled R extension which requires the manual creation of a configuration file. You can install the Simple R extension using NetLogo's built-in extension manager http://ccl.northwestern.edu/netlogo/docs/extension-manager.html Examples showing how to use it can be found here https://github.com/NetLogo/SimpleR-Extension/blob/main/README.md#using. Information on switching to Simple R from the bundled R extension is here https://github.com/NetLogo/SimpleR-Extension#transitioning-from-the-old-r-extension. Note on uninstalling – extensions such as the R extension that are installed when you first open a downloaded version of NetLogo cannot be uninstalled. If you install an additional extension you will be able to uninstall it. Aaron

-- Aaron Brandes, Software Developer Center for Connected Learning and Computer-Based Modeling From: JMEjby ***@***.***> Date: Wednesday, January 3, 2024 at 7:18 AM To: NetLogo/NetLogo ***@***.***> Cc: Subscribed ***@***.***> Subject: [NetLogo/NetLogo] Extensions frozen (Issue #2203) Hi there, I am having some problems with using NetLogo extensions. I am extending an existing model using the rnd and r extensions. I have succesfully run previous versions of this model. I get this error when adding the r extension: "Error in R-Extension: Error in runOnce (Error #4<https://urldefense.com/v3/__https:/github.com/NetLogo/NetLogo/issues/4__;!!Dq0X2DkFhyF93HkjWTBQKhk!QRub4L9_ILgDc48ElzBujSiBBeBU9UKQ047RY9-2CWU590npOJcomMGoH5Nz82TDijpTQrzL-mEswMgjkjJQPUVm9CDGZNhKfg$>): java.lang.ClassCastException: class.jdk.internal.loader.ClassLoader$AppClassLoader cannot be cast to class java.net.URLClassLoader (jdk.internal.loader.ClassLoader$AppClassLoader and java.net.URLClassLoader are in module java.base of loader "bootstrap"). I have rJava installed in R. When looking in my files, there is no r folder in my NetLogo folder, and there is no files/folders in the extensions folder either. Yet, in the extensions manager in NetLogo I can see that multiple extensions should be installed including R, rnd, python, CSV etc. I also cannot uninstall and reinstall any of the extensions. I have added some screen recordings for additional details. It may be multiple separate issues as I can run a version of the model that uses only the rnd extension. It may also be related to some issues on my computer related to Java - any advice on how I can check this would be much appreciated! Videos * Unable to uninstall extensions: https://github.com/NetLogo/NetLogo/assets/81433797/7463f8b8-b092-470f-87ab-ed9acf672d15<https://urldefense.com/v3/__https:/github.com/NetLogo/NetLogo/assets/81433797/7463f8b8-b092-470f-87ab-ed9acf672d15__;!!Dq0X2DkFhyF93HkjWTBQKhk!QRub4L9_ILgDc48ElzBujSiBBeBU9UKQ047RY9-2CWU590npOJcomMGoH5Nz82TDijpTQrzL-mEswMgjkjJQPUVm9CDvs9nWmA$> * Empty extensions folder and no R folder: https://github.com/NetLogo/NetLogo/assets/81433797/42ae5809-14e4-4ae9-898d-63096d6d2796<https://urldefense.com/v3/__https:/github.com/NetLogo/NetLogo/assets/81433797/42ae5809-14e4-4ae9-898d-63096d6d2796__;!!Dq0X2DkFhyF93HkjWTBQKhk!QRub4L9_ILgDc48ElzBujSiBBeBU9UKQ047RY9-2CWU590npOJcomMGoH5Nz82TDijpTQrzL-mEswMgjkjJQPUVm9CBOB1lu-A$> — Reply to this email directly, view it on GitHub<https://urldefense.com/v3/__https:/github.com/NetLogo/NetLogo/issues/2203__;!!Dq0X2DkFhyF93HkjWTBQKhk!QRub4L9_ILgDc48ElzBujSiBBeBU9UKQ047RY9-2CWU590npOJcomMGoH5Nz82TDijpTQrzL-mEswMgjkjJQPUVm9CDVuBbP2A$>, or unsubscribe<https://urldefense.com/v3/__https:/github.com/notifications/unsubscribe-auth/ANSUO2WP6ZZTOWWJNP3L3BDYMVEAJAVCNFSM6AAAAABBLK6NRSVHI2DSMVQWIX3LMV43ASLTON2WKOZSGA3DGOJSHAYTIOA__;!!Dq0X2DkFhyF93HkjWTBQKhk!QRub4L9_ILgDc48ElzBujSiBBeBU9UKQ047RY9-2CWU590npOJcomMGoH5Nz82TDijpTQrzL-mEswMgjkjJQPUVm9CC1eUQGTg$>. You are receiving this because you are subscribed to this thread.Message ID: ***@***.***>