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Diffstat (limited to 'issues/gemma/gemma-wrapper-has-incomplete-files.gmi')
| -rw-r--r-- | issues/gemma/gemma-wrapper-has-incomplete-files.gmi | 4 |
1 files changed, 4 insertions, 0 deletions
diff --git a/issues/gemma/gemma-wrapper-has-incomplete-files.gmi b/issues/gemma/gemma-wrapper-has-incomplete-files.gmi index 4bea71d..3c9a7ad 100644 --- a/issues/gemma/gemma-wrapper-has-incomplete-files.gmi +++ b/issues/gemma/gemma-wrapper-has-incomplete-files.gmi @@ -17,6 +17,10 @@ GNU parallel can fail, but does not tell how individual processes did. Need to c Turns out GNU parallel can keep track of jobs in a job log - and even rerun the ones missing. The last we don't need because we are using a cache. But we can use the log file to remove any incomplete output files! +## Dealing with locks + There is another parallel issue (pun intended) where gemma-wrapper is invoked twice for the same job. This is quite possible when people get impatient waiting for a first job to finish. One solution is to write a lock file using the inputs as a hash. The lock file can contain a PID and we can check if that is still alive. I should do the same for sheepdog locks(!) + +=> https://github.com/genetics-statistics/gemma-wrapper/commit/e7e516ec5a6ffc5b398302fa204685a40e76e171 Added locking support |