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Diffstat (limited to 'topics/lmms/rqtl2/gn-rqtl-design-implementation.gmi')
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diff --git a/topics/lmms/rqtl2/gn-rqtl-design-implementation.gmi b/topics/lmms/rqtl2/gn-rqtl-design-implementation.gmi index 8a32255..f853509 100644 --- a/topics/lmms/rqtl2/gn-rqtl-design-implementation.gmi +++ b/topics/lmms/rqtl2/gn-rqtl-design-implementation.gmi @@ -14,7 +14,30 @@ This document outlines the design proposal for the re-implementation of the RQTL feature in GeneNetwork providing also a console view to track the external process. ### Problem Definition -The current RQTL implementation requires enhancements. The core functionality remains the same: making API calls from GeneNetwork 3 (GN3). The system needs a cleaner architecture for future use, emphasizing improved error handling and a clear separation of concerns between GeneNetwork 2 (GN2) and GN3. This will involve eliminating file transfers between GN2 and GN3. Additionally, a console should be provided to users for tracking the progress of ongoing tasks. + +The current RQTL implementation faces the following challenges: + +- Lack of adequate error handling for the API and scripts. + +- Insufficient separation of concerns between GN2 and GN3. + +- The system requires a cleaner architecture for future use. + +- lack way for user to track the progress of the r-qtl script being executed + +We will address these challenges and add enhancements by: + + +- Rewriting the R script using r-qtl2 instead of r-qtl. + +- Improving the overall design and architecture of the system. + +- Establishing clear separation of concerns between GN2 and GN3, eliminating file path transfers between the two. + +- Implementing better error handling for both the API and the RQTL script. + +- Piping stdout from the script to the browser through a console for real-time monitoring. + ## High-Level Design This is divided into two major components: |