broadinstitute / viral-core

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LAST BUILD ON BRANCH v2.4.1

branch: v2.4.1

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Build # 11839767506

Build Type

push

github

Committed by web-flow

Commit Message

update calc_mem.py script used to obtain within-container memory limit for cgroup v2 (#114)

* update calc_mem.py script used to obtain within-container memory limit for cgroup v2

update calc_mem.py script used to obtain within-container memory limit for cgroup v2, obtaining memory limit from new read-only file, falling back to psutil-based approach. Additionally, allow calc_mem.py to return memory values in kb or b. Also update CPU limit for cgroup v2 in calc_mem.py and util.misc; add psutil to conda requirements

* expand unit tests of util.misc.available_cpu_count()

expand unit tests of util.misc.available_cpu_count() to include tests where cgroup v2 is used, where cgroup v1 is used, where limits are imposed (or not) on either, or where multiprocessing.cpu_count() is used as the fallback in the event a hex bitmask cannot be found in the usual fallback of /proc/self/status

* explicit monkeypatching of os.path to test cgroup v2 on cgroup v1 environment

Run Details

3080 of 4664 relevant lines covered (66.04%)

0.66 hits per line