run does not finish

[palomo11]

Hi,

I'm running simka on around 1000 samples with a total of 45 billion reads.

simka -in simka_input.txt -out results_simka -out-tmp temp_output -simple-dist -max-count 6 -max-merge 18 -nb-cores 112 -max-memory 100000

In the first two days it creates the following folders:

drwxr-xr-t   2 28039 Jun 17 14:32 input
drwxr-xr-t   2     0 Jun 17 14:32 merge_synchro
drwxr-xr-t   2     0 Jun 17 14:32 stats
drwxr-xr-t   2     0 Jun 17 14:32 job_count
drwxr-xr-t   2     0 Jun 17 14:32 job_merge
-rw-r--r--   1 10989 Jun 17 14:32 datasetIds
-rw-r--r--   1 46824 Jun 17 14:38 config.h5
drwxr-xr-t 344  8782 Jun 17 14:38 solid
drwxr-xr-t   2 38016 Jun 19 06:13 log
drwxr-xr-t   7   140 Jun 19 06:15 temp
drwxr-xr-t   2 31850 Jun 19 06:15 kmercount_per_partition
drwxr-xr-t   2 30854 Jun 19 06:15 count_synchro

But since June 19th nothing has happened, but the job is still running. Is this normal? Should I keep waiting?

[FengqingWang0712]

Hi,

I'm running simka on around 1000 samples with a total of 45 billion reads.

simka -in simka_input.txt -out results_simka -out-tmp temp_output -simple-dist -max-count 6 -max-merge 18 -nb-cores 112 -max-memory 100000

In the first two days it creates the following folders:

drwxr-xr-t   2 28039 Jun 17 14:32 input
drwxr-xr-t   2     0 Jun 17 14:32 merge_synchro
drwxr-xr-t   2     0 Jun 17 14:32 stats
drwxr-xr-t   2     0 Jun 17 14:32 job_count
drwxr-xr-t   2     0 Jun 17 14:32 job_merge
-rw-r--r--   1 10989 Jun 17 14:32 datasetIds
-rw-r--r--   1 46824 Jun 17 14:38 config.h5
drwxr-xr-t 344  8782 Jun 17 14:38 solid
drwxr-xr-t   2 38016 Jun 19 06:13 log
drwxr-xr-t   7   140 Jun 19 06:15 temp
drwxr-xr-t   2 31850 Jun 19 06:15 kmercount_per_partition
drwxr-xr-t   2 30854 Jun 19 06:15 count_synchro

But since June 19th nothing has happened, but the job is still running. Is this normal? Should I keep waiting?

Hi, I met the same problem as you said. I wonder how you solve the problem. Can you please give me some comments? Thanks very much!