fix Docker

.github/workflows/docker.yml

@@ -40,8 +40,8 @@ jobs:
  - name: Set up Docker Buildx
  uses: docker/setup-buildx-action@v3
  with:
- platforms: linux/amd64
- # platforms: linux/amd64,linux/arm64
+ # platforms: linux/amd64
+ platforms: linux/amd64,linux/arm64
 
  - name: Login to Docker Hub
  uses: docker/login-action@v3
@@ -55,8 +55,8 @@ jobs:
  cache-from: type=gha
  cache-to: type=gha,mode=max
  context: .
- platforms: linux/amd64
- # platforms: linux/amd64,linux/arm64
+ # platforms: linux/amd64
+ platforms: linux/amd64,linux/arm64
  push: true
  tags: ${{ env.LATEST_TAG }}
 

Dockerfile

@@ -1,10 +1,5 @@
 FROM bioconductor/bioconductor_docker:3.19-R-4.4.0
 
-# Update apt and install necessary system dependencies
-RUN apt-get update && apt-get install -y --no-install-recommends libcurl4-openssl-dev libharfbuzz-dev libfribidi-dev \
- && apt-get clean \
- && rm -rf /var/lib/apt/lists/*
-
 # Add a non-root user and create the R library directory
 RUN useradd -m tima-user && \
  mkdir -p /home/tima-user/Library/Frameworks/R.framework/Resources/site-library && \
@@ -18,7 +13,7 @@ USER tima-user
 WORKDIR /home/tima-user
 
 # Install R dependencies
-RUN Rscript -e "install.packages('tima', repos = c('https://taxonomicallyinformedannotation.r-universe.dev', 'https://bioc.r-universe.dev', 'https://cloud.r-project.org'))"
+RUN Rscript -e "devtools::install_github('taxonomicallyinformedannotation/tima')"
 
 # Additional install
 RUN Rscript -e "tima::install()"

README.Rmd

@@ -92,8 +92,8 @@ A container is also available, together with a small compose file.
 Main commands are below:
 
 ``` bash
-docker pull adafede/tima-r --platform linux/amd64
-# docker build . -t adafede/tima-r --platform linux/amd64
+docker pull adafede/tima-r
+# docker build . -t adafede/tima-r
 ```
 
 ``` bash

README.md

@@ -106,8 +106,8 @@ A container is also available, together with a small compose file. Main
 commands are below:
 
 ``` bash
-docker pull adafede/tima-r --platform linux/amd64
-# docker build . -t adafede/tima-r --platform linux/amd64
+docker pull adafede/tima-r
+# docker build . -t adafede/tima-r
 ```
 
 ``` bash

codemeta.json

@@ -555,7 +555,7 @@
  "SystemRequirements": null
  },
  "keywords": ["metaboliteannotation", "chemotaxonomy", "scoringsystem", "naturalproducts", "computationalmetabolomics", "taxonomicdistance", "specializedmetabolome"],
- "fileSize": "4075.582KB",
+ "fileSize": "4075.212KB",
  "citation": [
  {
  "@type": "SoftwareSourceCode",