Unable to Run Delft3D-FM with Sigma Layers in Parallel on Linux Cluster https://dlt-acc.firelay.cloud/en/c/message_boards/find_thread?p_l_id=4041874&threadId=4473820 2026-05-12T16:53:11Z 2026-05-12T16:53:11Z Erik de Goede https://dlt-acc.firelay.cloud/en/c/message_boards/find_message?p_l_id=4041874&messageId=4506902 2021-09-22T06:25:27Z 2021-09-22T06:25:27Z

Dear Matthew,<br /><br />Since your model is running on your personal deskop, this is not a model input problem but  its eems to be related to the software installation on your cliuster.<br /><br />Could you run the successful simulation on your own desktop on your cluster as well? Thus, with the same (DIMR)startscript and with the same number of partitions. <br />This will prove whether or not this is related to the installatiion of the software.<br /><br />With kind regards,<br />Erik de Goede 

Erik de Goede 2021-09-22T06:25:27Z Matthew Brand https://dlt-acc.firelay.cloud/en/c/message_boards/find_message?p_l_id=4041874&messageId=4475487 2021-09-09T17:35:45Z 2021-09-09T17:32:14Z

I wanted to provide a brief update based on my recent testing. I was able to partition the model into a contiguous domain using a smaller number of partitions (n=2), but unfortunately that did not solve the problem either. So, the hypothesis I brought forward on the previous post is incorrect and I have no further explanations for why the model will not work now.

Matthew Brand 2021-09-09T17:32:14Z Matthew Brand https://dlt-acc.firelay.cloud/en/c/message_boards/find_message?p_l_id=4041874&messageId=4473819 2021-09-09T01:13:05Z 2021-09-09T01:12:13Z

Hi all,<br /><br />I&#39;m currently trying to run a 3D Delft3D-FM (Version 2021.03) salinity simulation of an estuary using 10 sigma layers and struggling to get the simulation working on my Linux cluster. What&#39;s strange is that I&#39;m able to get the simulation running in 2D on the same cluster and in full 3D on my person desktop (6 core machine) without any issues, but when I try and run it via DIMR on my 64 core cluster it doesn&#39;t work. I&#39;m running it with 48 cores, and I get the following error:<div class="quote"><div class="quote-content">=============================================================================<br />=   BAD TERMINATION OF ONE OF YOUR APPLICATION PROCESSES<br />=   PID 72679 RUNNING AT dc011<br />=   EXIT CODE: 11<br />=   CLEANING UP REMAINING PROCESSES<br />=   YOU CAN IGNORE THE BELOW CLEANUP MESSAGES<br />===================================================================================<br />YOUR APPLICATION TERMINATED WITH THE EXIT STRING: Segmentation fault (signal 11)<br />This typically refers to a problem with your application.<br />Please see the FAQ page for debugging suggestions</div></div>Unfortunately my .dia file isn&#39;t very informative either. I&#39;m partitioning the model using the automatic partition exporter (METIS, PETSC algorithm) in the GUI. I&#39;ve tried other partitioning methods to no success. I&#39;ve attached the full error code and .dia files to this thread.<br /><br />One thing I noticed is that my GUI does not contain the &#34;contiguous domains&#34; option which is present in the manual (see images below). Indeed, when I check my partition I see that there are some portions of the model which are discontinuous - is that what could be causing the issue?<br /><br />My Delft3D-FM Partition Exporter Options:<br /><img src="" /><img src="https://dlt-acc.firelay.cloud/documents/portlet_file_entry/4041089/image--tempRandomSuffix--BtWFuJeF.png/1ab58d9e-9d4b-4406-0788-f2c44bc0d050" /><br />Manual Delft3D-FM Partition Exporter Options: <br /><img src="" /><img src="https://dlt-acc.firelay.cloud/documents/portlet_file_entry/4041089/image--tempRandomSuffix--ATREKGxT.png/e833d31d-b3bd-c3ce-0d92-a7efb297ddc4" /><br /><br />Example of my discontinuous mesh:<br /><img src="" /><img src="https://dlt-acc.firelay.cloud/documents/portlet_file_entry/4041089/image--tempRandomSuffix--C0T4hFjC.png/87645488-2076-5306-db5c-1b71d9f4afe9" />

Matthew Brand 2021-09-09T01:12:13Z