| Age | Commit message (Collapse) | Author | |
|---|---|---|---|
| 10 days | Update gn-guile script. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-12-09 | gn-libs: Upgrade to commit 66bac3d. | Frederick Muriuki Muriithi | |
| 2024-12-07 | gn-guile: Unset GUILE_LOAD_PATH from the global environment. | Munyoki Kilyungi | |
| `getenv "GUILE_LOAD_PATH"` leaks the global GUILE_LOAD_PATH into the package build. Should it return #f, a build error occurs. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-12-06 | Genenetwork2: Update to 9342309. | Frederick Muriuki Muriithi | |
| 2024-12-06 | GeneNetwork2: Upgrade to 2e362f7. | Frederick Muriuki Muriithi | |
| 2024-12-06 | genenetwork2: Add gn-libs as dependency. | Frederick Muriuki Muriithi | |
| 2024-12-06 | gn-libs: Upgrade to f9caab3. | Frederick Muriuki Muriithi | |
| 2024-12-04 | gn: graphaligner: Update to 1.0.20. | Arun Isaac | |
| * gn/packages/bioinformatics.scm (graphaligner): Update to 1.0.20. [arguments]: Substitute in bamtools include directory. [inputs]: Add bamtools. | |||
| 2024-12-04 | gn: graphaligner: Use search-inputs-directory. | Arun Isaac | |
| * gn/packages/bioinformatics.scm (graphaligner)[arguments]: Use search-inputs-directory in patch-source phase. | |||
| 2024-12-03 | gnu: vg: Update to 1.61.0. | Arun Isaac | |
| * 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. | |||
| 2024-12-03 | gn: vg: Build man pages unconditionally. | Arun Isaac | |
| * gn/packages/bioinformatics.scm (vg)[arguments]: Build man pages unconditionally in the build-manpages phase. | |||
| 2024-12-03 | gn: vg: Use G-expressions. | Arun Isaac | |
| * gn/packages/bioinformatics.scm (vg): Use G-expressions. | |||
| 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 | |
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