Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

pbgzip can't decompress regular gzipped files #19

Open
bskubi opened this issue Jul 25, 2024 · 0 comments
Open

pbgzip can't decompress regular gzipped files #19

bskubi opened this issue Jul 25, 2024 · 0 comments

Comments

@bskubi
Copy link

bskubi commented Jul 25, 2024

Minimal example:

echo abc > demo.txt
gzip demo.txt
pbgzip -d demo.txt.gz

Output:

invalid block header
reader reader_read_block: bug encountered

gzip version: 1.13
pbgzip version: 2016.08.04

This is an issue for me because some of the bioinformatics software I rely on is based on pbgzip, and it's therefore not able to robustly handle the gzipped tsv files we routinely use in data processing. Note also that gzip is able to decompress pbgzipped files.

echo abc > demo.txt
pbgzip demo.txt
gzip -d demo.txt.gz
cat demo.txt

Output: abc

It would be great to see decompression of regular gzipped files supported by pbgzip!

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

No branches or pull requests

1 participant