RE: [EXTERNAL] MS-MPI

From: [email protected] <[email protected]> On Behalf Of Sam Liao Sent: Monday, February 28, 2022 9:45 AM To: nmusers <[email protected]> Subject: [EXTERNAL] [NMusers] MS-MPI Hi, We got the problem to run MS-MPI when we installed nm 7.5.1 lately. We used WFN cmd 'nmgo' after we set cpus=32 on a local PC with win 10. The error msg is shown below. Please let us know any resolution of this problem. Thanks. Sam ===================================== ERROR: Failed RpcCliCreateContext error 1722 Aborting: mpiexec on DESKTOP-AEVT3IJ is unable to connect to the smpd service on localhost:8677 Other MPI error, error stack: connect failed - The RPC server is unavailable. (errno 1722) On 11/18/2019 5:28 PM, Jeroen Elassaiss-Schaap (PD-value B.V.) wrote: >>>> Hi Leonid, >>>> >>>> "A while" back we compared model development trajectories and >>>> results between two computational platforms, Itanium and Xeon, see >>>> https://www.page-meeting.org/?abstract=1188. >>>> The results roughly >>>> were: 1/3 equal, 1/3 rounding differences and 1/3 real different >>>> results. From discussions with the technical knowledgeable people I >>>> worked with at the time, I recall that there are three >>>> levels/sources for those differences: >>>> >>>> 1) computational (hardware) platform >>>> >>>> 2) compilers (+ optimization settings) >>>> >>>> 3) libraries (floating point handling does matter) >>>> >>>> Assuming you would like to compare the speed of the platforms wrt >>>> NONMEM, my advice would be to test a large series of different >>>> models, from simple ADVAN1 or 2 to complex ODE, ranging from FO to >>>> LAPLACIAN INT NUMERICAL, while keeping compilers and libraries the >>>> same. Also small and large datasets, as in some instances you might >>>> be testing only the L1/L2/L3 cache strategies and Turbo settings. >>>> And with and without parallelization - as that might determine >>>> runtime bottlenecks in practice. >>>> >>>> Just having a peek at Epyc - seems interesting (noticed results w >>>> gcc7.4 compilation). As long as you are able to hold the >>>> computation in cache, a big if for the 64-core, there might be an >>>> advantage. >>>> >>>> All in all I am not sure that it is worth the trouble. For any >>>> given PK-PD model there is a lot you can tune to gain speed, but >>>> the optimal settings might be very different for the next and >>>> overrule any platform differences. >>>> >>>> Hope this helps, >>>> >>>> Jeroen >>>> >>>> http://pd-value.com >>>> [email protected]<mailto:[email protected]> >>>> @PD_value >>>> +31 6 23118438 >>>> -- More value out of your data! >>>> >>>> On 18/11/19 6:34 pm, Leonid Gibiansky wrote: >>>>> Thanks Bob and Peter! >>>>> >>>>> The model is quite stable, but this is LAPLACIAN, so requires >>>>> second derivatives. At iteration 0, gradients differ by about 50 >>>>> to 100% between Intel and AMD. This leads to differences in >>>>> minimization path, and slightly different results. Not that >>>>> different to change the recommended dose, but sufficiently >>>>> different to notice (OF difference of 6 points; 50% more model >>>>> evaluations to get to convergence). >>>>> Thanks >>>>> Leonid >>>>> >>>>> >>>>> >>>>> On 11/18/2019 12:15 PM, Bonate, Peter wrote: >>>>>> Leonid - when you say different. What do you mean? Fixed effect >>>>>> and random effects? Different OFV? >>>>>> >>>>>> We did a poster at AAPS a decade or so ago comparing results >>>>>> across different platforms using the same data and model. We got >>>>>> different results on the standard errors (which related to matrix >>>>>> inversion and how those are done using software-hardware >>>>>> configurations). And with overparameterized models we got >>>>>> different error messages - some platforms converged with no >>>>>> problem while some did not converge and gave R matrix singularity. >>>>>> >>>>>> Did your problems go beyond this? >>>>>> >>>>>> pete >>>>>> >>>>>> >>>>>> >>>>>> Peter Bonate, PhD >>>>>> Executive Director >>>>>> Pharmacokinetics, Modeling, and Simulation >>>>>> Astellas >>>>>> 1 Astellas Way, N3.158 >>>>>> Northbrook, IL 60062 >>>>>> [email protected]<mailto:[email protected]> >>>>>> (224) 205-5855 >>>>>> >>>>>> >>>>>> >>>>>> Details are irrelevant in terms of decision making - Joe Biden. >>>>>> >>>>>> >>>>>> >>>>>> >>>>>> >>>>>> >>>>>> -----Original Message----- >>>>>> From: [email protected]<mailto:[email protected]> >>>>>> <[email protected]<mailto:[email protected]>> >>>>>> On Behalf Of Leonid Gibiansky >>>>>> Sent: Monday, November 18, 2019 11:05 AM >>>>>> To: nmusers <[email protected]<mailto:[email protected]>> >>>>>> Subject: [NMusers] AMD vs Intel >>>>>> >>>>>> Dear All, >>>>>> >>>>>> I am testing the new Epyc processors from AMD (comparing with >>>>>> Intel Xeon), and getting different results. Just wondering >>>>>> whether anybody faced the problem of differences between AMD and >>>>>> Intel processors and knows how to solve it. I am using Intel >>>>>> compiler but ready to switch to gfortran or anything else if this >>>>>> would help to get identical results. >>>>>> There were reports of Intel slowing the AMD execution in the >>>>>> past, but in my tests, speed is comparable but the results differ. >>>>>> >>>>>> Thanks >>>>>> Leonid >>>>>> >>>>>> >>>>>> >>>>> >>> >> >> Page Title >> >> >> >> >> >> >> >> När du har kontakt med oss på Uppsala universitet med e-post så >> innebär det att vi behandlar dina personuppgifter. För att läsa mer >> om hur vi gör det kan du läsa här: >> http://www.uu.se/om-uu/dataskydd-personuppgifter >> >> E-mailing Uppsala University means that we will process your personal >> data. For more information on how this is performed, please read >> here: >> http://www.uu.se/en/about-uu/data-protection-policy > > > > -- Sam Liao Pharmax Research Inc. 14 Upland, Irvine, CA 92602 Phone: 201-9882043 efax: 720-2946783 http://www.pharmaxresearch.com