I observed this weird behaviour a few times when loading tens of thousands of DB for clapas.
- xpas v0.3.1
- I call
xpas::load() on some rps database
- it hangs forever, and never finishes to load.
- this happens only on the the cluster AND NOT on my local machine (same database file, it loads in 2 seconds).
To reproduce on lamarck :
# load env
conda activate /ngs/linard/conda/
source /ngs/nromashchenko/load_env.sh
# build problematic database
/beegfs/linard/CLAPPAS/clapas_core/lib/xpas/build/xpas-build-aa-pos \
--merge-branches \
-k 5 -o 5.0 \
--ar-binary "$(which raxml-ng)" \
--refalign /beegfs/linard/CLAPPAS/33208/pruned/3B9RA/Ax/A0_nx0_la.align \
--reftree /beegfs/linard/CLAPPAS/33208/pruned/3B9RA/Tx/T0_nx0_la.tree.raxml.bestTree.rerooted \
--ar-dir /beegfs/linard/CLAPPAS/33208/pruned/3B9RA/Dx/A0_nx0_la/k5_o5.00/AR \
--workdir /beegfs/linard/CLAPPAS/33208/pruned/3B9RA/Dx/A0_nx0_la/k5_o5.00 \
--uncompressed
# compile target xpas_example_stats, then :
xpas_example_stats /beegfs/linard/CLAPPAS/33208/pruned/3B9RA/Dx/A0_nx0_la/k5_o5.00/DB_k5_o5.0.rps
# will hang forever with 100% CPU usage and no RAM increase ...
I observed this weird behaviour a few times when loading tens of thousands of DB for clapas.
xpas::load()on some rps databaseTo reproduce on lamarck :