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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
2022-11-30gn: Remove upstreamed packagesEfraim Flashner
2022-11-16gn: Add graph-genotyper and dependent packagesEfraim Flashner
2022-11-13gn: pgr-tk: Unbundle agc.Efraim Flashner
2022-11-10gn: Add missing imports and package licenses.Efraim Flashner
2022-11-10gn: Add pgr-tkEfraim Flashner
2022-09-24gn: Update blobtools.Efraim Flashner
2022-09-20gn: Add blobtools.Efraim Flashner
2022-08-18 gn: bioinformatics: Add import of moved python-setuptools-scmPjotr Prins
* gn/packages/bioinformatics.scm
2022-07-29gn: busco: Update to 5.4.1.Efraim Flashner
2022-07-29gnu: pplacer: Fix building.Efraim Flashner
* gn/packages/ocaml.scm (ocaml4.07-lwt-5.5.0): New variable. (build-with-ocaml4.07): New procedure. * gn/packages/bioinformatics.scm (pplacer): Wrap with build-with-ocaml4.07.
2022-06-21gn: Add quast.Efraim Flashner
2022-06-21gn: metaeuk: Fix building package.Efraim Flashner
2022-06-07gn: hap.py: Add previously missing inputs.Efraim Flashner
2022-06-07gn: Fix building python2-bx-python.Efraim Flashner
2022-06-07gn: pplacer-scripts: Update argument field.Efraim Flashner
2022-06-07gn: python2-biopython: Fix building package.Efraim Flashner
2022-06-07gn: Hide inputs which have been dropped by Guix.Efraim Flashner
2022-06-07gn: Add missing module importsEfraim Flashner
2022-06-01gn: Add python2-biopython.Arun Isaac
python2-biopython has been removed from Guix upstream. * gn/packages/bioinformatics.scm (python2-biopython): New variable.
2022-06-01gn: bioinformatics: Import (gnu packages ocaml).Arun Isaac
* gn/packages/bioinformatics.scm: Import (gnu packages ocaml) required by dependencies of pplacer.
2022-06-01gnu: Add pplacer.Arun Isaac
pplacer and pplacer-scripts have been removed from Guix upstream. * gn/packages/bioinformatics.scm (pplacer, pplacer-scripts): New variables.
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