sra_pipeline issueshttps://git.biohpc.swmed.edu/BICF/Astrocyte/sra_pipeline/-/issues2020-04-30T16:16:25-05:00https://git.biohpc.swmed.edu/BICF/Astrocyte/sra_pipeline/-/issues/19Add concatination flag2020-04-30T16:16:25-05:00Jonathan GesellAdd concatination flagAdd a flag to concatenate the resulting fastq files if there are multiple files found (default is to concat).Add a flag to concatenate the resulting fastq files if there are multiple files found (default is to concat).Astrocyte FunctionalityJonathan GesellJonathan Gesellhttps://git.biohpc.swmed.edu/BICF/Astrocyte/sra_pipeline/-/issues/22Parallelize tests2020-06-16T09:35:08-05:00Jonathan GesellParallelize testsRe-write the tests using a combination of joblib.Parallel and pytest-parallel to see if we can speed up the tests. Note: on Nucleus009, we want to keep the core usage count down to no more than 4 cores.Re-write the tests using a combination of joblib.Parallel and pytest-parallel to see if we can speed up the tests. Note: on Nucleus009, we want to keep the core usage count down to no more than 4 cores.Jonathan GesellJonathan Gesellhttps://git.biohpc.swmed.edu/BICF/Astrocyte/sra_pipeline/-/issues/24Containerize Pipeline2020-06-17T16:37:54-05:00Jonathan GesellContainerize PipelineDesign the container so that it can be run by Docker as one image.Design the container so that it can be run by Docker as one image.Azure FunctionalityJonathan GesellJonathan Gesell