bamrescue

This third pre-release of bamrescue adds a man page, as well as bash and zsh completions.

While not production ready yet, it is already usable if you need to work with corrupted bam files.

This second pre-release of bamrescue is able to rescue non-corrupted bgzf block from corrupted bam files and write them to new, non-corrupted bam files that are ready for use.

It also features a progress bar showing the number of corrupted bgzf blocks as they are found while checking.

While not production ready yet, it is already usable if you need to work with corrupted bam files.

This first pre-release of bamrescue is able to check bam files for all kinds of corruptions (including truncation, bitflips, bad sectors and frameshifts) and outputs statistics about bgzf blocks and lost data.

It is a bit slower than gzip -t on a single thread, but much faster with more threads.

While not production ready yet, it is already a viable replacement for gzip -t, giving more information in less time.