I am trying to run OMA standalone on a set of primate genomes, using DNA sequences instead of AA. I am running OMA v1.0.6.
Some/many of my jobs are failing with the following error message (I am using -d 3 to get more information):
only_run_allall := true only_run_dbconv := false # SetRandSeed: SetRand(261301471): Starting database conversion and checks... Process 23089 on node-u04a-022: job nr 7 of 500 job 7 [pid 23089]: conversion done; waited for 0 sec [pid 23089]: Computing gorilla vs human (Part 1281 of 2384). Mem: 0.288GB [pid 23089]: 5.00% complete, time left for this part=0.08h, 11.2% of AllAll done. Mem: 0.288GB Error, (in RangeOfChunk_iterator) sequence 2 is too long executing statement: iterate(FullInd2Tuple(index,GS[name2,TotEntries])) locals defined as: name1 = gorilla, name2 = human, chunk = 1281, totChunks = 2384, all = 2383042332, first = 1279485816, last = 1280485414, index = 1279547847 RangeOfChunk_iterator called with arguments: RangeOfChunk(gorilla,human, 1281)
Is this because some of the sequences are too long? If that is the case, what is the limit? Otherwise, what could I do to fix this issue?