| Age | Commit message (Collapse) | Author | |
|---|---|---|---|
| 8 days | Run script to make non-human data public production-container | Frederick Muriuki Muriithi | |
| 8 days | Container for gn2-fred.genenetwork.org | Frederick Muriuki Muriithi | |
| The gn2-fred.genenetwork.org container is mostly like the production container, other than the domain name used. It is intended to test any changes to the deployment (e.g. guix commit changes, new definitions, etc) to catch as many breakages as possible before they hit production. | |||
| 8 days | Reduce number of Gunicorn workers. | Frederick Muriuki Muriithi | |
| I reduce the number of workers by 10 to reduce resource usage, and also because we do not need so many workers. | |||
| 8 days | Virtuoso: Reduce number of buffers to keep RAM usage less that 10%. | Frederick Muriuki Muriithi | |
| Have each virtuoso instance use less memory in order to keep the services at less than or equal to 10% of the total RAM in the system. | |||
| 11 days | genenetwork3: Upgrade to commit 34a6b37. | Frederick Muriuki Muriithi | |
| 11 days | Genenetwork2: Upgrade to commit 905cacd. | Frederick Muriuki Muriithi | |
| 11 days | gn-uploader: Upgrade to commit e4db73e. | Frederick Muriuki Muriithi | |
| 12 days | gn-libs: Upgrade to commit 9bc8297. | Frederick Muriuki Muriithi | |
| 12 days | gn-guile: Inherit from guix-bioinformatics. | Frederick Muriuki Muriithi | |
| 2025-12-30 | gn-auth: Upgrade to commit bd0f453. | Frederick Muriuki Muriithi | |
| 2025-12-29 | gn-uploader: Upgrade to commit a65b120. | Frederick Muriuki Muriithi | |
| 2025-12-19 | genenetwork2: upgrade to commit c057054. | Frederick Muriuki Muriithi | |
| 2025-12-19 | genenetwork3: upgrade to commit c16eedf. | Frederick Muriuki Muriithi | |
| 2025-12-19 | gn-auth: Upgrade to commit 1f2c00e. | Frederick Muriuki Muriithi | |
| 2025-12-19 | gn-libs: Upgrade to commit edfbd94. | Frederick Muriuki Muriithi | |
| 2025-12-13 | genenetwork2: upgrade to commit bde8bde. | Frederick Muriuki Muriithi | |
| 2025-12-13 | Use package inputs: fix bugs in ee4ac37. | Frederick Muriuki Muriithi | |
| I copied and pasted the package replacement, but forgot to update the package names in the pasted lines. | |||
| 2025-12-13 | genenetwork2: Use local (to gn-machines) genenetwork3 as dependency. | Frederick Muriuki Muriithi | |
| 2025-12-13 | Update genenetwork3 to commit 810dbf2. | Frederick Muriuki Muriithi | |
| 2025-12-13 | Use local (to gn-machines) `gn-libs` definition. | Frederick Muriuki Muriithi | |
| 2025-12-13 | Add `gn-libs` definition. | Frederick Muriuki Muriithi | |
| 2025-12-03 | Expose genotype files directory to uploader | Frederick Muriuki Muriithi | |
| Expose the genotype files directory to the uploader, initially in read-only mode. | |||
| 2025-12-03 | gn-uploader: Specify TMPDIR for gn-uploader. | Frederick Muriuki Muriithi | |
| 2025-12-03 | genenetwork2: Update to commit 255a403. | Frederick Muriuki Muriithi | |
| 2025-12-03 | gn-auth: Update to commit 5823b0a. | Frederick Muriuki Muriithi | |
| 2025-12-03 | gn-uploader: Update to commit 9514647. | Frederick Muriuki Muriithi | |
| 2025-12-03 | Update to last-known working commit of guix-bioinformatics | Frederick Muriuki Muriithi | |
| Bring the declared guix-bioinformatics commit to the same commit as the channels for the last deployment to production to make moving forward easier. | |||
| 2025-12-01 | Use genenetwork package variants from this channel. | Arun Isaac | |
| 2025-12-01 | Remove unused gn-libs import. | Arun Isaac | |
| 2025-12-01 | Make repository a guix channel. | Arun Isaac | |
| 2025-11-14 | Manually create laminar profile directory if it doesn't exist. | Munyoki Kilyungi | |
| 2025-11-13 | Use latest Guix channel, not the commit with substitutes available. | Arun Isaac | |
| channel-with-substitutes-available only picks up on the commit with substitutes available when the container is built. That means we will be stuck with an old commit forever. This is not what we want. Better to pick the latest commit, and build it ourselves if substitutes aren't available. | |||
| 2025-11-12 | Adjust genetwork{2,3} reqs to not rely on gn-auth/genenetwork3. | Munyoki Kilyungi | |
| 2025-11-12 | Set the respawn limit for gn{-auth,2,3} to 5s from 0.5s. | Munyoki Kilyungi | |
| 2025-11-10 | Remove ccwl from development container. | Munyoki Kilyungi | |
| 2025-11-10 | Fix typo. | Munyoki Kilyungi | |
| 2025-11-10 | Make the {auth,llm}-db-path dir writable. | Munyoki Kilyungi | |
| 2025-11-10 | Set the correct home-directory when cloning repos in gn-guile g-exp. | Munyoki Kilyungi | |
| 2025-10-27 | Share the parent dir for `llm-db-path` with POLA wrapper | Frederick Muriuki Muriithi | |
| Share the parent directory for `llm-db-path` with the POLA wrapper, rather than just the file to ensure that the permissions are set up correctly and prevent SQLite from raising an error. | |||
| 2025-10-27 | Use 'file://' protocol to force git to do shallow local clone. | Frederick Muriuki Muriithi | |
| 2025-10-27 | Pass in the bare repository path to the gexp | Frederick Muriuki Muriithi | |
| Pass in the bare repository path to the gexp and use it instead of fetching the value from the environment. This decouples the gexp from changes in the code, e.g. should the environment variable name be changed, we do not have to change this gexp. | |||
| 2025-10-08 | Virtuoso: Explicitly specify the error-log file and enable syslog. | Frederick Muriuki Muriithi | |
| To help troubleshoot startup issues, provide a specific path for the 'ErrorLogFile' setting for virtuoso, and also enable the 'Syslog' option to enable messages before virtuoso is completely initialised. | |||
| 2025-10-08 | gn-uploader: Change ownership of and map secrets directory. | Frederick Muriuki Muriithi | |
| * Change the ownership of the secrets directory and all its children rather than just the secrets file. * Expose the secrets directory to the application, rather than just the secrets file. Make the directory writable. | |||
| 2025-10-08 | Setup path to gn-docs correctly. | Frederick Muriuki Muriithi | |
| 2025-10-08 | Define and schedule "samples counts" script to run. | Frederick Muriuki Muriithi | |
| 2025-10-08 | Map the auth db parent directory rather than just the file. | Frederick Muriuki Muriithi | |
| Mapping the file only leads to permission issues within the POLA wrapper since SQLite checks both the file, and the parent directory; because of this, we have to map the parent directory to the POLA wrapper too. | |||
| 2025-10-04 | latent service | Pjotr Prins | |
| 2025-10-04 | fallback: change hostname | Pjotr Prins | |
| 2025-10-04 | Prevent gn-auth-port from conflicting | Pjotr Prins | |
| 2025-10-04 | Add mouse-longevity service | Pjotr Prins | |
 |
index : gn-machines | |
| Guix configuration for genenetwork machines |
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