Figure 2

Pipeline job management. The pipeline database tracks the status of jobs, analyses and batches. As indicated by the ovals, a batch is a collection of analyses, and an analysis is a set of jobs. A job is a single execution of a program on a single sequence (for example, BLASTX similarity searching of a unit of genomic sequence). All three have a current task status. The slowest running in the set dictates the status of an analysis and a batch. Thus, in terms of analyses, the analysis status is the same as the status of the slowest job in that analysis, and for batches, the status is the same as the slowest analysis in that batch. The allowed values for the status attribute are READY, RUN, FIN, PROCD, UNPRC and FAIL. With respect to jobs, READY means the jobs are ready to be sent to the pipeline queue, RUN means the jobs are on the queue or being run, FIN means the jobs have run but have not yet been processed by BOP to extract the results from the raw data, UNPRC generally means there was an error in the processing step, FAIL means there was an error in job execution, and PROCD means the jobs have run and been processed by BOP.