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2024-10-25Upgrade guix channel to 2394a7f.Arun Isaac
* .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").
2024-10-25gn: pplacer: Use G-expressions.Arun Isaac
* gn/packages/bioinformatics.scm (pplacer): Use G-expressions.
2024-10-23gn: graphaligner: Update to 1.0.19.Arun Isaac
* gn/packages/bioinformatics.scm (graphaligner): Update to 1.0.19. [native-inputs]: Add (jemalloc "bin").
2024-10-23gn: graphaligner: Use G-expressions.Arun Isaac
* gn/packages/bioinformatics.scm (graphaligner): Use G-expressions.
2024-10-22gn: smoothxg: Update to 0.8.0.Arun Isaac
* gn/packages/bioinformatics.scm (smoothxg): Update to 0.8.0. [arguments]: Remove architecture-specific -march=armv8-a+simd flag.
2024-10-22gn: odgi: Update to 0.9.0.Arun Isaac
* gn/packages/bioinformatics.scm (odgi): Update to 0.9.0.
2024-10-22gn: seqwish: Update to 0.7.11.Arun Isaac
* gn/packages/bioinformatics.scm (seqwish): Update to 0.7.11.
2024-04-19gn: Add hifiasm.Arun Isaac
* gn/packages/bioinformatics.scm (hifiasm): New variable.
2024-02-23gn: bioinformatics: Import (guix build-system r).Arun Isaac
2024-02-23gn: Add r-stitch.Arun Isaac
* gn/packages/bioinformatics.scm (r-stitch): New variable.
2024-02-23gn: Add vcfpp.Arun Isaac
* gn/packages/bioinformatics.scm (vcfpp): New variable.
2024-02-23gn: Add seqlib.Arun Isaac
* gn/packages/bioinformatics.scm (seqlib): New variable.
2024-02-23gn: Add r-rrbgen.Arun Isaac
* gn/packages/bioinformatics.scm (r-rrbgen): New variable.
2023-10-19Remove bh20-seq-resource.Arun Isaac
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.
2023-09-26pggb: Add missing inputsEfraim Flashner
2023-09-26pggb: wrap with more packagesEfraim Flashner
2023-09-26gsl: Provide glibc-hwcaps version.Efraim Flashner
2023-09-26vg: Update package definitionEfraim Flashner
2023-09-26seqwish: Provide glibc-hwcaps versionEfraim Flashner
2023-09-26seqwish: Build and link against shared library.Efraim Flashner
2023-09-25seqwish: Make package tunable.Efraim Flashner
2023-09-25vg: Link with some shared libraries.Efraim Flashner
2023-09-24pggb: Fix typo.Efraim Flashner
2023-09-24pggb: Provide version with glibc-hwcaps.Efraim Flashner
2023-09-24smoothxg: Link with odgiEfraim Flashner
2023-09-24smoothxg: Link with sdsl-liteEfraim Flashner
2023-09-24seqwish: Link with sdsl-libEfraim Flashner
2023-09-24pggb: Remove python-pycairoEfraim Flashner
2023-09-24pggb: Add htslib for tabix dependency.Efraim Flashner
2023-09-22Add pggb.Efraim Flashner
2023-09-22vg: Prepare for using a shared library.Efraim Flashner
2023-09-22vg: Update to 1.50.0.Efraim Flashner
2023-09-21mummer: Update to 4.0.0rc1.Efraim Flashner
2023-09-21odgi: Add variant with glibc-hwcaps.Efraim Flashner
2023-09-21wfmash: Fix typos.Efraim Flashner
2023-09-21odgi: Update to 0.8.3.Efraim Flashner
2023-09-21Add smoothxgEfraim Flashner
2023-09-20seqwish: Update to 0.7.9.Efraim Flashner
2023-09-20Add wfmash with glibc-hwcap libraries.Efraim Flashner
2023-09-19Add pafplotEfraim Flashner
2023-09-19Add fastixEfraim Flashner
2023-09-19Add vcfbubEfraim Flashner
2023-09-19gfaffix: Update to 0.1.5.Efraim Flashner
2023-06-18Remove unused twint from GN2pjotrp
2023-04-10vg: Use curl instead of curl-minimal.Arun Isaac
curl-minimal has been removed from upstream Guix. * gn/packages/bioinformatics.scm (vg)[inputs]: Use curl instead of curl-minimal.
2023-03-22bh20-seq-resource: Add version without profile collisions.Efraim Flashner
* gn/packages/bioinformatics.scm (bh20-seq-resource-for-service): New variable. * gn/services/bh20-seq-resource-container.scm (covid19-pubseq-configuration): Use it by default.
2023-03-22bh20-seq-resource: Patch reference to minimap2.Efraim Flashner
* gn/packages/bioinformatics.scm (bh20-seq-resource)[arguments]: Add phase to hardcode path to minimap2. [inputs]: Add minimap2.
2023-03-22bh20-seq-resource: Update to 1.0-4.2ae7191.Efraim Flashner
* gn/packages/bioinformatics.scm (bh20-seq-resource): Update to 1.0-4.2ae7191. [source]: Adjust snippet for changes in source. [arguments]: Skip tests. [propagated-inputs]: Add python-shexc-0.7. Remove python-dateutil, python-flask, python-pycurl, python38-ruaml.yaml-0.15.76, clustalw, python-twint. [native-inputs]: Remove git, python-oauth2client, python-uritemplate. Replace python-pytest-4 with python-pytest-5, python-pytest-runner-2 with python-pytest-runner-4.
2023-03-22Add python-pytest-runner-4.Efraim Flashner
* gn/packages/python.scm (python-pytest-runner-4): New variable. * gn/packages/bioinformatics.scm (python-pytest-runner-2): MOve to python.scm
2022-12-08Minor fixes aiming for genenetwork1Pjotr Prins
generated by cgit v1.2.3 (git 2.44.0) at 2024-11-15 20:20:49 +0000