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what(): 'database_10916': File truncated #153

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hafizmtalha opened this issue May 11, 2021 · 1 comment
Open

what(): 'database_10916': File truncated #153

hafizmtalha opened this issue May 11, 2021 · 1 comment

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@hafizmtalha
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I am facing the following issue.
downloading step didn't show any error or warning. but every time I run the build command this error comes up.

terminate called after throwing an instance of 'jellyfish::compacted_hash::ErrorReading'
what(): 'database_10916': File truncated
/home/anaconda3/libexec/build_db.sh: line 146: 9593 Aborted (core dumped) $JELLYFISH_BIN merge -o database.jdb.tmp database_*

@jhcuarta
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Hi
I'm having the same issue

terminate called after throwing an instance of 'jellyfish::compacted_hash::ErrorReading'
what(): 'database_1917': File truncated
/home/jason/Documents/kraken-master/build_kraken_db.sh: line 96: 1497144 Aborted (core dumped) jellyfish merge -o database.jdb.tmp database_*

Although I modified build_kraken_db.sh script line 82, by adding an -s 10000000 tag to overcome line's 87 mv error: argument list too long
jellyfish count -m $KRAKEN_KMER_LEN -s $KRAKEN_HASH_SIZE -C -t $KRAKEN_THREAD_CT
-o database /dev/fd/0 -s 10000000

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