| Age | Commit message (Collapse) | Author | |
|---|---|---|---|
| 2023-09-19 | Add pafplot | Efraim Flashner | |
| 2023-09-19 | Add fastix | Efraim Flashner | |
| 2023-09-19 | Add vcfbub | Efraim Flashner | |
| 2023-09-19 | gfaffix: Update to 0.1.5. | Efraim Flashner | |
| 2023-06-18 | Remove unused twint from GN2 | pjotrp | |
| 2023-04-10 | vg: 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. | |||
| 2023-03-22 | bh20-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. | |||
| 2023-03-22 | bh20-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. | |||
| 2023-03-22 | bh20-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. | |||
| 2023-03-22 | Add 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 | |||
| 2022-12-08 | Minor fixes aiming for genenetwork1 | Pjotr Prins | |
| 2022-11-30 | gn: Remove upstreamed packages | Efraim Flashner | |
| 2022-11-16 | gn: Add graph-genotyper and dependent packages | Efraim Flashner | |
| 2022-11-13 | gn: pgr-tk: Unbundle agc. | Efraim Flashner | |
| 2022-11-10 | gn: Add missing imports and package licenses. | Efraim Flashner | |
| 2022-11-10 | gn: Add pgr-tk | Efraim Flashner | |
| 2022-09-24 | gn: Update blobtools. | Efraim Flashner | |
| 2022-09-20 | gn: Add blobtools. | Efraim Flashner | |
| 2022-08-18 | gn: bioinformatics: Add import of moved python-setuptools-scm | Pjotr Prins | |
| * gn/packages/bioinformatics.scm | |||
| 2022-07-29 | gn: busco: Update to 5.4.1. | Efraim Flashner | |
| 2022-07-29 | gnu: 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. | |||
| 2022-06-21 | gn: Add quast. | Efraim Flashner | |
| 2022-06-21 | gn: metaeuk: Fix building package. | Efraim Flashner | |
| 2022-06-07 | gn: hap.py: Add previously missing inputs. | Efraim Flashner | |
| 2022-06-07 | gn: Fix building python2-bx-python. | Efraim Flashner | |
| 2022-06-07 | gn: pplacer-scripts: Update argument field. | Efraim Flashner | |
| 2022-06-07 | gn: python2-biopython: Fix building package. | Efraim Flashner | |
| 2022-06-07 | gn: Hide inputs which have been dropped by Guix. | Efraim Flashner | |
| 2022-06-07 | gn: Add missing module imports | Efraim Flashner | |
| 2022-06-01 | gn: Add python2-biopython. | Arun Isaac | |
| python2-biopython has been removed from Guix upstream. * gn/packages/bioinformatics.scm (python2-biopython): New variable. | |||
| 2022-06-01 | gn: bioinformatics: Import (gnu packages ocaml). | Arun Isaac | |
| * gn/packages/bioinformatics.scm: Import (gnu packages ocaml) required by dependencies of pplacer. | |||
| 2022-06-01 | gnu: Add pplacer. | Arun Isaac | |
| pplacer and pplacer-scripts have been removed from Guix upstream. * gn/packages/bioinformatics.scm (pplacer, pplacer-scripts): New variables. | |||
| 2022-06-01 | gnu: Add python-pytest-runner-2. | Arun Isaac | |
| python-pytest-runner-2 has been removed from Guix upstream. * gn/packages/bioinformatics.scm (python-pytest-runner-2): New variable. | |||
| 2022-06-01 | gn: Adjust vg for other architectures | Efraim Flashner | |
| 2022-04-20 | gn: Add wfa2-lib-static. | Efraim Flashner | |
| 2022-04-20 | gn: wfa2-lib: Install headers. | Efraim Flashner | |
| 2022-04-19 | gn: Add wfa2-lib. | Efraim Flashner | |
| 2022-04-10 | gn: vg: Update to 1.39.0. | Efraim Flashner | |
| 2022-03-31 | gn: Update gfaffix to 0.1.3 | Efraim Flashner | |
| 2022-03-20 | gn: upstream python-scikit-allel | Efraim Flashner | |
| 2022-03-16 | gn: Add python-pixy. | Efraim Flashner | |
| 2022-02-27 | gn: Add willowmap | Efraim Flashner | |
| 2022-01-23 | gn: Add verkko. | Efraim Flashner | |
| 2022-01-23 | gn: graphaligner: Fix building and update to 1.0.14 | Efraim Flashner | |
| 2022-01-09 | gn: Unconditionally use current rust package. | Efraim Flashner | |
| 2021-12-29 | gnu: Add python2-bx-python. | Arun Isaac | |
| python2-bx-python has been removed from upstream Guix. * gn/packages/bioinformatics.scm (python2-bx-python): New variable. | |||
| 2021-12-29 | Reference non-public rust packages using @@. | Arun Isaac | |
| rust-1.47 and rust-1.49 are no longer exported from (gnu packages rust). * gn/packages/bioinformatics.scm (gfaffix): Reference rust-1.49 using @@. * gn/packages/crates-io.scm (rust-handlegraph-0.7): Reference rust-1.47 using @@. | |||
| 2021-12-06 | gn: Add mutation-simulator | Efraim Flashner | |
| 2021-11-16 | gn: metaeuk: enable tests. | Efraim Flashner | |
| 2021-11-15 | gn: Add sepp, busco | Efraim Flashner | |
 |
index : guix-bioinformatics | |
| Bioinformatics packages for GNU Guix |
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