Segmentation fault (core dumped) when split very large fastq.gz

[xiekunwhy]

Hi,

seqtk split always "Segmentation fault (core dumped)" when splitting very large (11169381697 reads) fastq.gz file, do you know why ?

/public2/home/sl_qybio/sl_qybio/software/biosoft/seqtk/seqtk split -n 100 test.hic_1 in.hic_1.fq.gz
/public2/home/sl_qybio/sl_qybio/software/biosoft/seqtk/seqtk split -n 100 test.hic_2 in.hic_2.fq.gz

program stopped after running ~3h

/opt/gridview/slurm/spool/slurmd_c141/job3384756/slurm_script: line 11: 231658 Segmentation fault /public2/home/sl_qybio/sl_qybio/software/biosoft/seqtk/seqtk split -n 100 test.hic_1 in.hic_1.fq.gz
/opt/gridview/slurm/spool//opt/gridview/slurm/spool/slurmd_c142/job3384757/slurm_script: line 11: 383917 Segmentation fault      (core dumped) /public2/home/sl_qybio/sl_qybio/software/biosoft/seqtk/seqtk split -n 100 test.hic_2 in.hic_2.fq.gz

Best,
Kun

[xiekunwhy]

This problem took place again when I use it to split other hic data set (3786382958 reads).

[xiekunwhy]

These two worked, uint64_t must be used in stk_split function. Hope this can update to master branch.
seqtk.gemini.c
seqtk.gptmini.c

[jose-cantu]

These two worked, uint64_t must be used in stk_split function. Hope this can update to master branch. seqtk.gemini.c seqtk.gptmini.c

Can you elaborate in more detail what you did to fix this?