Legacy - Performance 3.5 Software
This document summarizes the software available on the Metworx Performance 3.5 Blueprint release. This is considered a "legacy" version of the Metworx platform, with fundamental differences from the 20.X Metworx Blueprint Series.
Metworx Performance 3.5 Software
Apache Guacamole is a clientless remote desktop gateway, requiring no client side applications other than a browser. Users will access an xfce desktop on running Metworx workflows.
MathWorks MATLAB is a matrix-based language for solving computational mathematics. MATLAB traction lies mostly in the realm of engineering, but it is also preferred by many systems biology groups for being a high-level language with high capabilities for systems of differential equations and graphics. MATLAB will be installed as a desktop application, to be accessed via Guacamole.
Monolix Suite: (v2018R2)
Monolix is software for non-linear mixed effects modeling (NLME) in pharmacometrics. Monoolix provides an alternative to NONMEM using the SAEM algorithm, and can be used for preclinical and clinical population PK/PD modeling and for systems pharmacology. Monolix utilizes a desktop installation and will be accessed via Guacamole.
Linux Web Server providing reverse proxy in front of web based tools used for the ability to access Guacamole and RStudio via HTTPS.
Pirana desktop: (v2.9.9)
Pirana is an IDE for NONMEM development, allowing for tracking of model development, interfacing with PsN for NONMEM job submission and R for model diagnostics. This tool provides an alternative interface to NONMEM for users who prefer using a desktop GUI and has a longer history of support and acceptance in the Pharmacometrics community, as compared to PiranaJS. Pirana is a desktop application and will be accessed via Guacamole.
R version (v3.5.1) (http://www.r-project.org/) is the current release of the open source statistical and graphics software on CRAN. Validation of the R installation and supporting packages will be mediated via the Chef recipe mrgQual::R (v0.3.0), which was developed to validate the core R installation through completion of example execution for the required and suggested base packages using the R function metrumrg::accept().
The latest version of RStudio-Server will be installed. RStudio-Server is an interactive development environment (IDE) for code development, and acts as the primary interface to workflows. Additionally, RStudio-Server acts as a possible mechanism for data transfer to METWORX workflows.
RStudio Desktop (v1.1.463)
The desktop version of Pirana has functionality to interface with RStudio, but does not work with RStudio-Server. To allow this functionality to be utilized by METWORX users, the desktop version of RStudio is additionally installed.