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* .guix-channel: Upgrade guix channel to c84ba4f.
* gn/packages/crates-io.scm: Import (gnu packages crates-check) for
rust-criterion.
* gn/packages/crates-io.scm, gn/packages/bioinformatics.scm:
Import (gnu packages crates-compression) for rust-flate2.
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* gn/packages/bioinformatics.scm (pggb)[inputs]: Replace wfmash with
wfmash-0.14.
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* gn/packages/bioinformatics.scm (wfmash-0.14): New variable.
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* gn/packages/bioinformatics.scm (pggb): Update to 0.7.2.
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These dependencies are referred to in the documentation and put into
the Docker image, but are not actually used by pggb.
* gn/packages/bioinformatics.scm (pggb)[inputs]: Remove fastix,
mummer, pafplot and vcflib.
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* gn/packages/bioinformatics.scm (odgi): Disable tests.
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* gn/packages/bioinformatics.scm (r-rrbgen)[name]: Fix typo.
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* gn/packages/bioinformatics.scm (graphaligner): Update to 1.0.20.
[arguments]: Substitute in bamtools include directory.
[inputs]: Add bamtools.
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* gn/packages/bioinformatics.scm (graphaligner)[arguments]: Use
search-inputs-directory in patch-source phase.
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* gn/packages/bioinformatics.scm (vg): Update to 1.61.0.
[arguments]: Add #:make-flags. Create obj and lib directories, and
prevent them from being deleted. Install libhandlegraph.so.
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* gn/packages/bioinformatics.scm (vg)[arguments]: Build man pages
unconditionally in the build-manpages phase.
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* gn/packages/bioinformatics.scm (vg): Use G-expressions.
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* gn/packages/bioinformatics.scm (vg)[arguments]: Remove commented-out
code.
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* .guix-channel: Upgrade guix channel to 2394a7f.
* gn/packages/bioinformatics.scm (pplacer)[inputs]: Replace gsl-static
with (gsl "static").
* gn/packages/ocaml.scm (ocaml4.07-gsl-1)[inputs]: Replace gsl-static
with (gsl "static").
* gn/packages/static.scm (wfmash-static)[inputs]: Replace gsl-static
with (gsl "static").
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* gn/packages/bioinformatics.scm (pplacer): Use G-expressions.
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* gn/packages/bioinformatics.scm (graphaligner): Update to 1.0.19.
[native-inputs]: Add (jemalloc "bin").
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* gn/packages/bioinformatics.scm (graphaligner): Use G-expressions.
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* gn/packages/bioinformatics.scm (smoothxg): Update to 0.8.0.
[arguments]: Remove architecture-specific -march=armv8-a+simd flag.
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* gn/packages/bioinformatics.scm (odgi): Update to 0.9.0.
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* gn/packages/bioinformatics.scm (seqwish): Update to 0.7.11.
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* gn/packages/bioinformatics.scm (hifiasm): New variable.
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* gn/packages/bioinformatics.scm (r-stitch): New variable.
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* gn/packages/bioinformatics.scm (vcfpp): New variable.
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* gn/packages/bioinformatics.scm (seqlib): New variable.
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* gn/packages/bioinformatics.scm (r-rrbgen): New variable.
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The package is broken, some of its inputs have been removed from
upstream Guix, and we no longer need this package.
* gn/packages/bioinformatics.scm (bh20-seq-resource): Delete variable.
* gn/services/bh20-seq-resource-container.scm: Delete file.
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