[MITgcm-support] Failure to create pickup file for DIC

[Martin Losch]

Hi Takaya,

I am not familiar with the Darwin package, but seg.fault usually mean some memory problem. I am guessing that you exceed the allowed stack memory of your shell. Try to “unilimit” the memory settings in your run script, i.e. for bash "ulimit -s unlimited” or for csh something like "limit stacksize unlimited”, before running the model

The other option is that somethings is wrong with writing the pickup-meta files (they are written immediately after the pickup-data files in darwin_write_pickup.F), but I find this unlikely.
You may want to check, (maybe if -g and trackback options of your compiler), where exactly the seg.fault is happening.

Martin


> On 12. Dec 2017, at 18:42, Uchida Takaya <tu2140 at columbia.edu> wrote:
> 
> Dear MITgcm support,
> 
> I am trying to set up a run with the Darwin biogeochemical package activated (I have the namelist files here: https://github.com/roxyboy/SO_Darwin/tree/master/runs/test_darwin).
> The model seems to run fine until the last time step but it fails when writing the pickup files for the DIC biogeochemical package that Darwin uses and I get a segmentation fault error.
> I get the pickup files for PTRACERS, both `.data` and `.meta`, but only `.data` for DIC and none related to the dynamical variables.
> Is there some incompatibility with the flags in my namelist files? When I turn off the Darwin package, the model successfully runs.
> 
> Thank you in advance for your attention and support.
> 
> Best,
> Takaya Uchida
> 
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