kamimrcht / REINDEER

REINDEER REad Index for abuNDancE quERy
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Error during index step, terminate called after throwing an instance of 'std::invalid_argument' #25

Open tbenavi1 opened 2 weeks ago

tbenavi1 commented 2 weeks ago

Hello,

I ran the following command: Reindeer --index -f fof_unitigs.txt -o /scratch/rranallo-benavidez/bcalm/quick_out2 -t 42

This was the output:

############# REINDEER version 1.4.6 #############
Command line was: /REINDEER/Reindeer --index -f fof_unitigs.txt -o /scratch/rranallo-benavidez/bcalm/quick_out2 -t 42

Indexing k-mers...

#Monotigs and index constuction...
Partition created       2,512,390,070 kmers read
350.941 seconds.
----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Monotigs computed, now regular indexing start
394.804 seconds.
terminate called after throwing an instance of 'std::invalid_argument'
  what():  Error opening /scratch/rranallo-benavidez/bcalm/quick_out2/_blkmers851982
Aborted

I think this issue may be related to the fact that I am using 42 threads. When I lowered to 32 threads, it ran successfully.