Re: Rust help needed for packaging sourmash, the replacement for "khmer"

Emmanuel Arias <[email protected]> Wed, 25 Sep 2024 13:17:47 -0300

Newsgroups	gmane.linux.debian.devel.medical,gmane.linux.debian.rust
Message-ID	<ZvQ3q3WkwECAMDSW@eamanu>

Hi!

On Wed, Sep 25, 2024 at 04:45:41PM +0200, Michael R. Crusoe wrote:
> If we are removing the "khmer" bioinformatics tool for being abandoned upstream, then we need to finish packaging sourmash.
> 
> Sourmash is a Python package with a rust core, and there are some rust crates that need brand NEW Debian packages according to "cargo-debstatus":
> 
> - az v1.2.1
> - counter v0.6.0
> - murmurhash3 v0.0.5
> - needletail v0.5.1
> - histogram v0.11.0
> - niffler v2.6.0
> - proc-macro2-diagnostics v0.10.1
> - piz v0.5.1
> - codepage-437 v0.1.0
> - rocksdb v0.21.0
> - librocksdb-sys v0.11.0+8.1.1
> - roots v0.0.8
> - vec-collections v0.4.3
> - sorted-iter v0.1.8
> 
> Any volunteers to crank out some new Debian packages for these rust crates? I only have a small amount of rust for Debian experience myself.

I can help with those. I saw that you start with az, I will start for
bottom. :-D


> 
> Bonus crate that is optional:
> - finch v0.6.0
> 
> 
> On 18/01/2019 16.08, Michael R. Crusoe wrote:
> > Package: wnpp
> > Severity: wishlist
> > Owner: Debian Med team <[email protected]>
> > 
> > * Package name    : sourmash
> >    Version         : 2.0.0~a11
> >    Upstream Author : C. Titus Brown <[email protected]>, Luiz C. Irber, Jr <[email protected]>
> > * URL             : http://sourmash.readthedocs.io/en/latest/
> > * License         : BSD-3-Clause
> >    Programming Lang: Python, C++
> >    Description     : tools for comparing DNA sequences with MinHash sketches
> > 
> >   Compute MinHash signatures for nucleotide (DNA/RNA) and protein sequences.
> >   .
> >   MinHash sketches provide a lightweight way to store “signatures” of large DNA
> >   or RNA sequence collections, and then compare or search them using a Jaccard
> >   index. MinHash sketches can be used to identify samples, find similar samples,
> >   identify data sets with shared sequences, and build phylogenetic trees
> >   (Ondov et al. 2015).
> >   .
> >   sourmash provides a command line script, a Python library, and a CPython
> >   module for MinHash sketches
> > 
> > Sourmash is team maintained by Debian-Med at https://salsa.debian.org/med-team/sourmash

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