From 79dc941d9e8670b941558637949c4ff82563352a Mon Sep 17 00:00:00 2001 From: Rita Silva <55759937+ritamtbsilva@users.noreply.github.com> Date: Mon, 10 Aug 2026 17:00:08 +0100 Subject: [PATCH] Update application configuration in application.yml Updated container wait time and image versions for applications. Added new applications for scStudio, markeR and CHARM, and updated existing ones. --- shinyproxy/application.yml | 81 ++++++++++++++++++++++++++++++++++++-- 1 file changed, 78 insertions(+), 3 deletions(-) diff --git a/shinyproxy/application.yml b/shinyproxy/application.yml index 11fa13d..bf837d4 100644 --- a/shinyproxy/application.yml +++ b/shinyproxy/application.yml @@ -13,7 +13,7 @@ proxy: # bind-address: 127.0.0.1 hide-navbar: false template-path: /opt/shinyproxy/templates - container-wait-time: 30000 + container-wait-time: 100000 container-log-path: /container-logs usage-stats-url: micrometer @@ -36,7 +36,7 @@ proxy: listed: true - id: voyAGEr description: Analysis of age-related gene expression changes in human - container-image: diseasetranscriptomicslab/voyager:v2.0.2 + container-image: diseasetranscriptomicslab/voyager:v2.0.3 container-network: "${proxy.docker.container-network}" container-volumes: [ "/srv/apps/voyAGEr/data:/home/app/data" ] template-properties: @@ -49,13 +49,73 @@ proxy: container-volumes: [ "/srv/apps/cTRAP/sessions:/data" ] template-properties: startup-time: 15s - listed: true + listed: true - id: scStudio container-image: martabica/scstudio-home:1.2 container-network: "${proxy.docker.container-network}" container-volumes: [ "/srv/apps/scStudio/tokens:/home/app/tokens", "/srv/apps/scStudio/public_datasets:/home/app/public_datasets", "/srv/apps/scStudio/session_data:/home/app/session_data" ] template-properties: listed: true + - id: scStudio_DATA + container-image: martabica/scstudio-selectdata:1.1 + container-network: "${proxy.docker.container-network}" + container-volumes: [ "/srv/apps/scStudio/tokens:/home/app/tokens", "/srv/apps/scStudio/public_datasets:/home/app/public_datasets", "/srv/apps/scStudio/session_data:/home/app/session_data" ] + template-properties: + listed: true + - id: scStudio_QC + container-image: martabica/scstudio-qc:1.1 + container-network: "${proxy.docker.container-network}" + container-volumes: [ "/srv/apps/scStudio/tokens:/home/app/tokens", "/srv/apps/scStudio/public_datasets:/home/app/public_datasets", "/srv/apps/scStudio/session_data:/home/app/session_data" ] + template-properties: + listed: true + - id: scStudio_NORM + container-image: martabica/scstudio-normalization:1.1 + container-network: "${proxy.docker.container-network}" + container-volumes: [ "/srv/apps/scStudio/tokens:/home/app/tokens", "/srv/apps/scStudio/public_datasets:/home/app/public_datasets", "/srv/apps/scStudio/session_data:/home/app/session_data" ] + template-properties: + listed: true + - id: scStudio_DIMRED + container-image: martabica/scstudio-dimred:1.1 + container-network: "${proxy.docker.container-network}" + container-volumes: [ "/srv/apps/scStudio/tokens:/home/app/tokens", "/srv/apps/scStudio/public_datasets:/home/app/public_datasets", "/srv/apps/scStudio/session_data:/home/app/session_data" ] + template-properties: + listed: true + - id: scStudio_CLUSTER + container-image: martabica/scstudio-clustering:1.1 + container-network: "${proxy.docker.container-network}" + container-volumes: [ "/srv/apps/scStudio/tokens:/home/app/tokens", "/srv/apps/scStudio/public_datasets:/home/app/public_datasets", "/srv/apps/scStudio/session_data:/home/app/session_data" ] + template-properties: + listed: true + - id: scStudio_DEA + container-image: martabica/scstudio-dea:1.5 + container-network: "${proxy.docker.container-network}" + container-volumes: [ "/srv/apps/scStudio/tokens:/home/app/tokens", "/srv/apps/scStudio/public_datasets:/home/app/public_datasets", "/srv/apps/scStudio/session_data:/home/app/session_data" ] + template-properties: + listed: true + - id: scStudio_GSEA + container-image: martabica/scstudio-fea:1.4 + container-network: "${proxy.docker.container-network}" + container-volumes: [ "/srv/apps/scStudio/tokens:/home/app/tokens", "/srv/apps/scStudio/public_datasets:/home/app/public_datasets", "/srv/apps/scStudio/session_data:/home/app/session_data" ] + template-properties: + listed: true + - id: scStudio_FEATPLOT + container-image: martabica/scstudio-featureplots:1.1 + container-network: "${proxy.docker.container-network}" + container-volumes: [ "/srv/apps/scStudio/tokens:/home/app/tokens", "/srv/apps/scStudio/public_datasets:/home/app/public_datasets", "/srv/apps/scStudio/session_data:/home/app/session_data" ] + template-properties: + listed: true + - id: scStudio_SETTINGS + container-image: martabica/scstudio-settings:1.1 + container-network: "${proxy.docker.container-network}" + container-volumes: [ "/srv/apps/scStudio/tokens:/home/app/tokens", "/srv/apps/scStudio/public_datasets:/home/app/public_datasets", "/srv/apps/scStudio/session_data:/home/app/session_data" ] + template-properties: + listed: true + - id: scStudio_REPORT + container-image: martabica/scstudio-report:1.1 + container-network: "${proxy.docker.container-network}" + container-volumes: [ "/srv/apps/scStudio/tokens:/home/app/tokens", "/srv/apps/scStudio/public_datasets:/home/app/public_datasets", "/srv/apps/scStudio/session_data:/home/app/session_data" ] + template-properties: + listed: true - id: betAS description: Intuitive differential alternative splicing analysis container-image: marianaferreira/betas:v1.2.1 @@ -64,6 +124,21 @@ proxy: template-properties: startup-time: 5s listed: true + - id: markeR + description: Toolkit for Evaluating Gene Sets as Phenotype Markers in R + container-image: diseasetranscriptomicslab/marker:shinyv0.99.7 + container-network: "${proxy.docker.container-network}" + template-properties: + startup-time: 15s + listed: true + - id: CHARMdev + description: Comprehensive Hub for Alternative Regulatory Mapping + container-image: diseasetranscriptomicslab/charm:dev + container-network: "${proxy.docker.container-network}" + container-volumes: [ "/srv/apps/CHARM/data:/home/app/data" ] + template-properties: + startup-time: 60s + listed: true logging: file: