Using latest release
Please describe your environment.Linux with gcc 8.2
Please specify the steps taken to generate the issue, the command you are running and the relevant output.Running samtools cat -@ 4 file1.bam file2.bam fails with
cat: invalid option -- '@'
Segmentation fault
Running samtools cat --threads 4 file1.bam file2.bam is valid, and behaves as expected with multithreading.
Both options (@/threads) are specified in the documentation for samtools cat, and follows the notation for other tools, so hopefully a simple fix.
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