High speed stand-alone pan genome pipeline
Roary is a high speed stand alone pan genome pipeline, which takes annotated assemblies in GFF3 format (produced by the Prokka program) and calculates the pan genome. Using a standard desktop PC, it can analyse datasets with thousands of samples, without compromising the quality of the results. 128 samples can be analysed in under 1 hour using 1 GB of RAM and a single processor. Roary is not intended for metagenomics or for comparing extremely diverse sets of genomes.
| System | Target | Derivation | Build status |
|---|---|---|---|
| x86_64-linux | /gnu/store/569w4p32sg7sxgy198kp34ia1sw5fnmr-roary-3.12.0.drv | ||
| i686-linux | /gnu/store/472spkzyb0zyhia175fsjqycm13jgr96-roary-3.12.0.drv |
| Linter | Message | Location |
|---|---|---|
| input-labels Identify input labels that do not match package names | label 'bioperl' does not match package name 'bioperl-minimal' | |
| input-labels Identify input labels that do not match package names | label 'perl-perlio-utf8_strict' does not match package name 'perl-perlio-utf8-strict' | |
| wrapper-inputs Make sure 'wrap-program' can finds its interpreter. | "bash-minimal" should be in 'inputs' when 'wrap-program' is used | |
| optional-tests Make sure tests are only run when requested | the 'check' phase should respect #:tests? |