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2024-10-29Virtuoso: Setup basic database settingsFrederick Muriuki Muriithi
Set up basic database settings to ensure persistence of data across restarts.
2024-10-28Virtuoso: Activate checkpointing and schedulerFrederick Muriuki Muriithi
2024-08-15Revert "rshiny: add logging for applications"jgart
This reverts commit 57444f7e0f360eb88e11aed4217143cafb164325.
2024-08-15Revert "rshiny: refactor import code into define-module form"jgart
This reverts commit 4addf0abad6c05b060ea4947512c6b413e3b750b.
2024-08-02rshiny: refactor import code into define-module formjgart
2024-08-02rshiny: add logging for applicationsjgart
2024-06-28import (gn packages genecup) module.Frederick Muriuki Muriithi
2024-06-28Remove import for missing module.Frederick Muriuki Muriithi
2024-06-21ratspub: remove definitions as they are replaced by genecupShepherd on Tux02
2024-06-20Merge branch 'master' of /home/git/public/guix-bioinformaticsShepherd on Tux02
2024-06-20Merge branch 'master' of https://gitlab.com/genenetwork/guix-bioinformaticsShepherd on Tux02
2024-06-20Rename penguin2->tux02Shepherd on Tux02
2023-10-19Remove bh20-seq-resource.Arun Isaac
The package is broken, some of its inputs have been removed from upstream Guix, and we no longer need this package. * gn/packages/bioinformatics.scm (bh20-seq-resource): Delete variable. * gn/services/bh20-seq-resource-container.scm: Delete file.
2023-09-19Update pluto notebook service and julia packagesEfraim Flashner
2023-09-19Update pluto serverEfraim Flashner
2023-06-26Fix DirsAllowed parameterMunyoki Kilyungi
* gn/services/databases.scm (virtuoso-shepherd-service): Remove square brackets that sorround the DirsAllowed parameter.
2023-06-20Add dirs-allowed to virtuoso configsMunyoki Kilyungi
2023-06-15Uncommitted genome browser changesEfraim Flashner
2023-06-15Update pluto service and dependant julia packagesEfraim Flashner
2023-03-22bh20-seq-resource-container.scm updatesEfraim Flashner
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.
2022-09-14Rename genenetwork 1 container file to genenetwork1.scm.Arun Isaac
2022-08-29Do not require networking for virtuoso shepherd-service.Arun Isaac
* gn/services/databases.scm (virtuoso-shepherd-service)[requirement]: Delete.
2022-08-22Set permissions on virtuoso state directory.Arun Isaac
* gn/services/databases.scm (virtuoso-activation): New function. (virtuoso-service-type): Extend activation-service-type with virtuoso-activation.
2022-08-20Log messages from virtuoso service.Arun Isaac
2022-05-05services: databases: Add virtuoso maximum dirty buffers configuration.Arun Isaac
* gn/services/databases.scm (<virtuoso-configuration>)[maximum-dirty-buffers]: New field. (virtuoso-shepherd-service): Serialize maximum-dirty-buffers field.
2022-05-05services: databases: Add virtuoso number of buffers configuration.Arun Isaac
* gn/services/databases.scm (<virtuoso-configuration>)[number-of-buffers]: New field. (virtuoso-shepherd-service): Serialize number-of-buffers field.
2022-03-10services: databases: Add virtuoso state directory configuration.Arun Isaac
* gn/services/databases.scm (<virtuoso-configuration>)[state-directory]: New field. * gn/services/databases.scm (virtuoso-shepherd-service): Use state-directory.
2022-03-10services: databases: Add virtuoso SQL server IP and port setting.Arun Isaac
* gn/services/databases.scm (<virtuoso-configuration>)[server-ip, server-port]: New fields. * gn/services/databases.scm (virtuoso-shepherd-service): Use server-ip and server-port.
2022-03-10services: databases: Add virtuoso HTTP server configuration.Arun Isaac
* gn/services/databases.scm (<virtuoso-configuration>)[http-server-ip]: New field. * gn/services/databases.scm (virtuoso-shepherd-service): Use http-server-ip.
2022-03-10services: databases: Prefer (guix records) to define-configuration.Arun Isaac
define-configuration does too much magic. * gn/services/databases.scm (<virtuoso-configuration>): Redefine using (guix records). Export virtuoso-configuration?. (virtuoso-shepherd-service): Represent a disabled port with #f.
2021-11-30gn: services: databases: Export virtuoso-service-type.Arun Isaac
* gn/services/databases.scm: Export virtuoso-service-type.
2021-11-30gnu: services: Add virtuoso service.Arun Isaac
* gn/services/databases.scm: New file.
2021-09-04Adjust to new multi-target bootloader configsEfraim Flashner
2021-06-06genecup: update to 1.1.Efraim Flashner
2021-05-27gn: genecup testingEfraim Flashner
2021-05-25gn: visuals more progressEfraim Flashner
2021-05-24gn: visuals webservice proof-of-conceptEfraim Flashner
2021-05-11gn: genome-browser: use database on penguin2Efraim Flashner
2021-05-04gn: genome browser tests goodEfraim Flashner
2021-04-30gn: genome-browser: update package, serviceEfraim Flashner
2021-04-30gn: genome browser: nearly have the graph working.Efraim Flashner
2021-04-26Merge branch 'discourse-ruby-packages'Efraim Flashner
2021-04-25gn: ucsc genome browser: functioning web service?Efraim Flashner
2021-04-22gn: Initial ucsc-genome-browser and service.Efraim Flashner
2021-04-19gn: discourse packaging on holddiscourse-ruby-packagesEfraim Flashner
2021-04-19gn: move bnw service to port 8881Efraim Flashner
2021-03-16gn: bnw: updatesEfraim Flashner
wrap run_scripts for octave invocations with coreutils adjust service
2021-03-04gn: Update bnw to latest version.Efraim Flashner
Update bnw and the service
2021-02-19mod_python session path fixPjotr Prins
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