Changes between Version 8 and Version 9 of cypress/SingularityDockerhub

Timestamp:

08/20/25 22:12:15 (8 hours ago)

Author:

cbaribault

Comment:

Added Example numbering, example 2 for latest R

cypress/SingularityDockerhub

@@ -21 +21 @@
 }}}
 
-== Building a container for Ubuntu ==
+== Example 1: Building a container for Ubuntu ==
 
 Load the module, 
@@ -57 +57 @@
 By default, the cache is stored in ~/.singularity; this location can be customized using the environmental variable SINGULARITY_CACHEDIR. A subcommand, singularity cache, can be used to manage the cache.
 
-== Example : [https://github.com/moshi4/FastDTLmapper FastDTLmapper] ==
+
+== Example 2: Building a container including the latest version of R ==
+
+The first of this sequence of commands creates ‘r-base_latest.sif’, which is the Singularity Image. You can rename/transfer it as you like.
+
+{{{
+singularity pull docker://r-base:latest  # creating .sif file takes ~6 minutes
+singularity shell -s /bin/bash r-base_latest.sif
+Singularity> head -1 /etc/os-release
+PRETTY_NAME="Debian GNU/Linux 13 (trixie)"
+Singularity> Rscript -e 'R.version.string'
+[1] "R version 4.5.1 (2025-06-13)"
+Singularity>
+}}}
+
+== Example 3: [https://github.com/moshi4/FastDTLmapper FastDTLmapper] ==
 This tool depends on many python packages and requires both python2 and python3. Fortunately, the developer provides Docker Images so we can use it to generate a Singularity image.