bgzf_blocked error when using samtools
when i used samtools sort for sorting .bam file, following error was appeared. any body know that how i can solve it?
[E::bgzf_read] Read block operation failed with error -1 after 0 of 4 bytes
samtools sort: truncated file. Aborting
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milanlove •
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error message is here: https://github.com/samtools/htslib/blob/44c6a36f2894b45ad6cb491833d27c6a2106410f/bgzf.c#L854 it an error with the way the file was compressed.
the input or output bam file looks corrupted.
try to check your input file is valid with
furthermore the command