Merge pull request #15 from michellab/bugfix-robust-slurm-queue-read

Bugfix robust slurm queue read

Author: fjclark

a3fe/_version.py

@@ -1 +1 @@
-__version__ = "0.2.0"
+__version__ = "0.2.1"

a3fe/run/_virtual_queue.py

@@ -201,8 +201,9 @@ def _read_slurm_queue_inner() -> _List[int]:
             """This inner function is defined so that we can pass self._logger
             to the decorator"""
             # Get job ids of currently running jobs. This assumes no array jobs.
+            # Only read running, pending, suspended, and completing jobs (R, PD, S, CG).
             commands = [
-                ["squeue", "-h", "-u", _getpass.getuser()],
+                ["squeue", "-h", "-u", _getpass.getuser(), "-t", "R,PD,S,CG"],
                 ["awk", "{print $1}"],
                 ["grep", "-v", "-E", "'\\[|_'"],
                 ["paste", "-s", "-d,", "-"],

docs/CHANGELOG.rst

@@ -2,6 +2,12 @@
 Change Log
 ===============
 
+0.2.1
+====================
+
+- Fixed issue https://github.com/michellab/a3fe/issues/14 where all jobs in the slurm queue were assumed to be
+  pending or running. This caused problems when completed jobs remained in the queue.
+
 0.2.0
 ====================