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Leon compression crashes when input has 1-character long sequence name. To reproduce:
Input file "1.fa":
>1 AGCGCGTCTGGCGTGTATAT GGCTGCTGTGCATTGTGTTC
Input file "2.fa":
>12 AGCGCGTCTGGCGTGTATAT GGCTGCTGTGCATTGTGTTC
(The only difference between these inputs is the extra character in sequence name).
Compression commands: leon -file '1.fasta' -c -kmer-size 2 leon -file '2.fasta' -c -kmer-size 2
leon -file '1.fasta' -c -kmer-size 2
leon -file '2.fasta' -c -kmer-size 2
The first command crashes with this console output:
Input format: Fasta [DSK: nb solid kmers found : 3 ] 100 % elapsed: 0 min 0 sec remaining: 0 min 0 sec cpu: 333.3 % mem: [ 82, 82, 82] MB [Compressing headers ] 0 % elapsed: 0 min 0 sec remaining: 0 min 0 seczsh: segmentation fault (core dumped) leon -file '1.fasta' -c -kmer-size 2
The second command completes without problems.
OS: Ubuntu 18.04.1 LTS
I found this problem while working on Sequence Compression Benchmark.
The text was updated successfully, but these errors were encountered:
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Leon compression crashes when input has 1-character long sequence name. To reproduce:
Input file "1.fa":
Input file "2.fa":
(The only difference between these inputs is the extra character in sequence name).
Compression commands:
leon -file '1.fasta' -c -kmer-size 2
leon -file '2.fasta' -c -kmer-size 2
The first command crashes with this console output:
The second command completes without problems.
OS: Ubuntu 18.04.1 LTS
I found this problem while working on Sequence Compression Benchmark.
The text was updated successfully, but these errors were encountered: