https://github.com/dominodatalab/nonmem

Nonmem Demo. Nonmem Docker file. Nonmem Demo Instructions.
https://github.com/dominodatalab/nonmem

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Nonmem Demo. Nonmem Docker file. Nonmem Demo Instructions.

• Host: GitHub
• URL: https://github.com/dominodatalab/nonmem
• Owner: dominodatalab
• Created: 2023-09-12T10:28:28.000Z (over 1 year ago)
• Default Branch: main
• Last Pushed: 2023-10-23T09:27:10.000Z (about 1 year ago)
• Last Synced: 2024-01-18T19:07:49.168Z (11 months ago)
• Language: AMPL
• Size: 3.24 MB
• Stars: 0
• Watchers: 4
• Forks: 0
• Open Issues: 0
• Metadata Files:
  • Readme: README.md
  • License: license/.dominokeep

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README

        
## Setup

This code will not work until a nonmem.lic file is purchases and placed within the /license folder in this project.

Use with the `NONMEM Regular Environment` for regular workloads. For MPI, use the 

`NONMEM MPI Compute Environment` and `NONMEM MPI Cluster Environment`.

## NONMEM Testing Overview

The following are test commands for running a NONMEM models on the workspace node and across nodes. The perl-speaks 

library is used to execute these programs. Note, the parafile is what runs NONMEM

in a parallel/distributed manner, and will start the mpirun command but it isn't successful. 

The example files are from 

[https://kb.metworx.com/Users/Tutorials/Nonmem/Nonmem-via-PsN/](https://kb.metworx.com/Users/Tutorials/Nonmem/Nonmem-via-PsN/).

The NONMEM documentation is saved in the project as nm741.pdf and has details about 

how to install MPI that might be helpful here, as well as the parafile information. 

#### Nonmem execution for run649:

`execute /mnt/code/insulin/run649.mod -dir=/mnt/code/run649`

#### Nonmem execution for run105:

`execute /mnt/code/run105.mod -dir=/mnt/code/run105`

 

#### Parallelization for run650:

This is the same as run649 but with parallelization options, from the original example:

 

`execute /mnt/insulin/run650.mod -dir=/mnt/run650 -parafile=/mnt/insulin/16.pnm`

This is my modified version, was not successful on MPI either:

`execute /mnt/run650/run650.mod -always_datafile_in_nmrun  -verbose -clean=4 -parafile=/mnt/mpi.pnm`