it failed with the following message:
"Settings:
Output files: "./ref_idx/sacCer3.genome..ht2"
Line rate: 6 (line is 64 bytes)
Lines per side: 1 (side is 64 bytes)
Offset rate: 4 (one in 16)
FTable chars: 10
Strings: unpacked
Local offset rate: 3 (one in 8)
Local fTable chars: 6
Local sequence length: 57344
Local sequence overlap between two consecutive indexes: 1024
Endianness: little
Actual local endianness: little
Sanity checking: disabled
Assertions: disabled
Random seed: 0
Sizeofs: void:8, int:4, long:8, size_t:8
Input files DNA, FASTA:
/project2/araman/yqlan/yeastAdaptation_seqData/yeast_reference_genome-genes/sacCer3_buklRNAseq_ref/sacCer3.genome.fa
Reading reference sizes
Segmentation fault"
I run hisat2-build for a yeast genome using the following command line:
hisat2-build $ref_dir/sacCer3.genome.fa ./ref_idx/sacCer3.genomeit failed with the following message: "Settings: Output files: "./ref_idx/sacCer3.genome..ht2" Line rate: 6 (line is 64 bytes) Lines per side: 1 (side is 64 bytes) Offset rate: 4 (one in 16) FTable chars: 10 Strings: unpacked Local offset rate: 3 (one in 8) Local fTable chars: 6 Local sequence length: 57344 Local sequence overlap between two consecutive indexes: 1024 Endianness: little Actual local endianness: little Sanity checking: disabled Assertions: disabled Random seed: 0 Sizeofs: void:8, int:4, long:8, size_t:8 Input files DNA, FASTA: /project2/araman/yqlan/yeastAdaptation_seqData/yeast_reference_genome-genes/sacCer3_buklRNAseq_ref/sacCer3.genome.fa Reading reference sizes Segmentation fault"
the genome size is 12M, and I used 50G memory
I'll appreciate if anyone can help. Thanks. yq