[maker-devel] NULs in master_datastore_index.log

[Mikael Brandström Durling]

Hello,

In order to work around locking problems with SQLite, I tried running (latest svn) maker off an NFSv4 export instead of NFSv3. (For some reason it seems maker does not detect the automounted volumes as being nfs mounted?). Running over NFSv4 makes SQLite happy, but then another problem popped up. It seems ds_utility.pm happens to write simultaneously to the datastore_index from several MPI ranks, which in my case results in stretches of NULs in the datastore file. This seems to result in maker trying to analyse the same contig simultaneously on two different MPI ranks. (I get rank failure notices on the output twice for the same rank, and maker complaining that the same GFF3 ID appears more than once).

Any hints on how this can be handled?

It appears as I should have installed and run maker on some other cluster without NFS mounted volumes to save myself a lot of hassles.

Thanks in advance,
Mikael