GNU bug report logs - #47930
[PATCH] gnu: Add pbgzip.

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From: Xinglu Chen <public <at> yoctocell.xyz>
To: Roel Janssen <roel <at> gnu.org>, Efraim Flashner <efraim <at> flashner.co.il>, Maxime Devos <maximedevos <at> telenet.be>
Cc: 47930 <at> debbugs.gnu.org
Subject: [bug#47930] [PATCH] gnu: Add pbgzip.
Date: Fri, 30 Apr 2021 10:30:49 +0200

On Thu, Apr 29 2021, Roel Janssen wrote:

> +(define-public pbgzip
> +  (let ((commit "2b09f97b5f20b6d83c63a5c6b408d152e3982974"))
> +    (package
> +      (name "pbgzip")
> +      (version (string-take commit 7))

Maybe you missed my previous suggestions?

  https://issues.guix.gnu.org/47930#2
  
> +      (source (origin
> +                (method git-fetch)
> +                (uri (git-reference
> +                      (url "https://github.com/nh13/pbgzip")
> +                      (commit commit)))
> +                (file-name (string-append name "-" version))
> +                (sha256
> +                 (base32
> +                  "1mlmq0v96irbz71bgw5zcc43g1x32zwnxx21a5p1f1ch4cikw1yd"))))
> +      (build-system gnu-build-system)
> +      (native-inputs
> +       `(("autoconf" ,autoconf)
> +         ("automake" ,automake)))
> +      (inputs
> +       `(("zlib" ,zlib)))
> +      (home-page "https://github.com/nh13/pbgzip")
> +      (synopsis "Parallel Block GZIP")
> +      (description "This package implements parallel block gzip.  For many
> +formats, in particular genomics data formats, data are compressed in
> +fixed-length blocks such that they can be easily indexed based on a (genomic)
> +coordinate order, since typically each block is sorted according to this order.
> +This allows for each block to be individually compressed (deflated), or more
> +importantly, decompressed (inflated), with the latter enabling random retrieval
> +of data in large files (gigabytes to terabytes).  @code{pbgzip} is not limited
> +to any particular format, but certain features are tailored to genomics data
> +formats when enabled.  Parallel decompression is somewhat faster, but truly the
                                                                     ^^^^^^^^^^^^^
> +speedup comes during compression.")
   ^^^^^^^

“but the true speedup” instead?

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