| Age | Commit message (Collapse) | Author | |
|---|---|---|---|
| 2024-12-03 | gn: vg: Remove commented-out code. | Arun Isaac | |
| * gn/packages/bioinformatics.scm (vg)[arguments]: Remove commented-out code. | |||
| 2024-11-22 | gn-uploader: Add gn-libs as a dependency. | Frederick Muriuki Muriithi | |
| 2024-11-22 | gn-libs: Upgrade to 4d9a298. | Frederick Muriuki Muriithi | |
| 2024-11-22 | gn-auth: Upgrade to 346217b. | Frederick Muriuki Muriithi | |
| 2024-11-22 | gn-auth: Add gn-libs as a new dependency. | Frederick Muriuki Muriithi | |
| 2024-11-22 | gn-libs: Upgrade to 0.0.0-1.70f456f | Frederick Muriuki Muriithi | |
| 2024-11-21 | gn-libs: New dependencies | Frederick Muriuki Muriithi | |
| Add `python-authlib` and `python-pymonad` as new dependencies. | |||
| 2024-11-21 | gn-libs (gn packages genenetwork): New package. | Frederick Muriuki Muriithi | |
| Add a new package named "gn-libs". | |||
| 2024-11-18 | gn-guile: Upgrade to 7af301c. | Frederick Muriuki Muriithi | |
| 2024-11-14 | guile: guile3-dbi: Use %gnu-build-system-modules. | Munyoki Kilyungi | |
| *gn/packages/guile.scm (guile3-dbi)[package]{arguments} <configure-flags>: Replace %default-gnu-imported-modules% with %gnu-build-system-modules. | |||
| 2024-11-12 | GeneNetwork2: Upgrade to 32140f6 | Frederick Muriuki Muriithi | |
| 2024-11-12 | GeneNetwork3: Upgrade to 5ea318e | Frederick Muriuki Muriithi | |
| 2024-11-12 | gn: genenetwork3: Add r-qtl2. | Alexander_Kabui | |
| * gn/packages/genenetwork.scm: (genenetwork3) [propagated-inputs]: Add r-qtl2. Reviewed-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-11-12 | Add gn-guile. | Munyoki Kilyungi | |
| * gn/packages/guile.scm (gn-guile): New package. | |||
| 2024-11-08 | Upgrade gn-auth to 4c21d0e. | Frederick Muriuki Muriithi | |
| 2024-11-04 | Upgrade genenetwork2 to 578a8eb. | Frederick Muriuki Muriithi | |
| 2024-11-04 | Import missing module. | Frederick Muriuki Muriithi | |
| 2024-11-04 | GN2, GN3, gn-auth, gn-uploader: Add nss-certs for python-requests | Frederick Muriuki Muriithi | |
| All the flask applications mentioned above make use of python-requests library which needs the CA certificate bundle present within the environment that each application runs in. The nss-certs package installs the appropriate CA certificate bundles. | |||
| 2024-10-31 | GeneNetwork2: Update commit and hash. | Frederick Muriuki Muriithi | |
| 2024-10-29 | Virtuoso: Setup basic database settings | Frederick Muriuki Muriithi | |
| Set up basic database settings to ensure persistence of data across restarts. | |||
| 2024-10-28 | Virtuoso: Activate checkpointing and scheduler | Frederick Muriuki Muriithi | |
| 2024-10-25 | Upgrade 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"). | |||
| 2024-10-25 | gn: pplacer: Use G-expressions. | Arun Isaac | |
| * gn/packages/bioinformatics.scm (pplacer): Use G-expressions. | |||
| 2024-10-23 | gn: ocaml4.07-gsl-1: Use G-expressions. | Arun Isaac | |
| * gn/packages/ocaml.scm (ocaml4.07-gsl-1): Use G-expressions. | |||
| 2024-10-23 | gn: graphaligner: Update to 1.0.19. | Arun Isaac | |
| * gn/packages/bioinformatics.scm (graphaligner): Update to 1.0.19. [native-inputs]: Add (jemalloc "bin"). | |||
| 2024-10-23 | gn: graphaligner: Use G-expressions. | Arun Isaac | |
| * gn/packages/bioinformatics.scm (graphaligner): Use G-expressions. | |||
| 2024-10-22 | gn: 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. | |||
| 2024-10-22 | gn: odgi: Update to 0.9.0. | Arun Isaac | |
| * gn/packages/bioinformatics.scm (odgi): Update to 0.9.0. | |||
| 2024-10-22 | gn: seqwish: Update to 0.7.11. | Arun Isaac | |
| * gn/packages/bioinformatics.scm (seqwish): Update to 0.7.11. | |||
| 2024-10-15 | GeneNetwork3: Update commit and hash. | Frederick Muriuki Muriithi | |
| 2024-10-03 | gn-auth: Update commit and hash. | Frederick Muriuki Muriithi | |
| 2024-09-27 | GeneNetwork3: Update commit and hash. | Frederick Muriuki Muriithi | |
| 2024-09-27 | GeneNetwork3: Update commit and hash | Frederick Muriuki Muriithi | |
| Pull in fixes for WGCNA and CTL analyses. | |||
| 2024-09-27 | GeneNetwork3: Update commit and hash | Frederick Muriuki Muriithi | |
| Pull in Pair-Scan output paths fixes | |||
| 2024-09-27 | GeneNetwork3: Update commit and hash. | Frederick Muriuki Muriithi | |
| 2024-09-27 | GeneNetwork3: Update commit and hash | Frederick Muriuki Muriithi | |
| Include R scripts in installed files. | |||
| 2024-09-27 | GeneNetwork3: Update commit and hash | Frederick Muriuki Muriithi | |
| Pull in changes fixing paths for rqtl_wrapper.R script. | |||
| 2024-09-27 | GeneNetwork3: Update commit and hash. | Frederick Muriuki Muriithi | |
| 2024-09-25 | gn-auth: (python-blinker) New dependency | Frederick Muriuki Muriithi | |
| 2024-09-25 | GeneNetwork2: Update commit and hash. | Frederick Muriuki Muriithi | |
| 2024-09-12 | GeneNetwork3: Update commit and hash | Frederick Muriuki Muriithi | |
| * Add missing python package. | |||
| 2024-09-12 | GeneNetwork3: Update commit and hash | Frederick Muriuki Muriithi | |
| 2024-09-11 | GeneNetwork2: Update commit and hash | Frederick Muriuki Muriithi | |
| Update to latest commit with @pjotr's changes. | |||
| 2024-09-11 | GeneNetwork2: Update commit and hash | Frederick Muriuki Muriithi | |
| Push fix below: https://github.com/genenetwork/genenetwork2/commit/8618fdc8f4c05153f48e1afdbf9d2c337ba79929 | |||
| 2024-09-11 | GeneNetwork2: Update commit and hash | Frederick Muriuki Muriithi | |
| This pushes fix for the bug caused by using relative paths for font files. | |||
| 2024-09-11 | GeneNetwork2: Update commit and hash | Frederick Muriuki Muriithi | |
| 2024-09-11 | GeneNetwork2: Update commit and hash | Frederick Muriuki Muriithi | |
| This update pushes some logging of a font file. The purpose is to debug relative paths, and prove/disprove a hypothesis. | |||
| 2024-09-10 | Revert "gn: gemma-wrapper: updated to 0.99.7" | Frederick Muriuki Muriithi | |
| This reverts commit 7eaa7028ffe3e8b0d5dfe242da87dd76930f637e. This does not include all the dependencies needed to run GEMMA. These were included with commit ab2ae88f2698cde22cae05c432f0f1ae0db7b070 later, but that also had to be reverted due to another issue altogether. | |||
| 2024-09-10 | Revert "(gn packages gemma-wrapper): Add new dependencies." | Frederick Muriuki Muriithi | |
| This reverts commit ab2ae88f2698cde22cae05c432f0f1ae0db7b070. At this point, running GEMMA will fail because it attempts to extract files into the /tmp directory, which leads to permission issues when there is an attempt to change the permission bits of /tmp. | |||
| 2024-09-10 | (gn packages gemma-wrapper): Add new dependencies. | Frederick Muriuki Muriithi | |
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index : guix-bioinformatics | |
| Bioinformatics packages for GNU Guix |
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