Merge pull request #83 from LCSB-BioCore/mk-galaxy

make a note about how to use the docker containers in podman and galaxy

README.md

@@ -61,6 +61,13 @@ $ docker run -ti --rm -v $PWD:/data -w /data ghcr.io/lcsb-biocore/docker/fbcmode
 $ docker run -ti --rm -v $PWD:/data -w /data ghcr.io/lcsb-biocore/docker/fbcmodeltests-compare-frog report_dir other_dir
 ```
 
+Docker containers may be re-used and executed in many other environments: using
+[podman](https://podman.io/) allows you to run in without installation in some
+HPC setups; using the [Dockerized tool
+capability](https://training.galaxyproject.org/training-material/topics/admin/tutorials/galaxy-docker/slides-plain.html)
+of [Galaxy](https://usegalaxy.org/) allows you to run the model tests in many
+institutional cloud-computing services and local Galaxy instances.
+
 ## MEMOTE-style tests
 
 The primary entry point for the [MEMOTE](https://memote.readthedocs.io/) test

docker/Dockerfile.comparefrog

@@ -2,7 +2,7 @@ FROM julia
 
 ADD README.md Project.toml LICENSE /pkg/
 ADD src/ /pkg/src/
-ADD bin/fbcmt-compare-frog /usr/bin
+ADD bin/ /usr/bin/
 
 RUN julia -e 'import Pkg; Pkg.develop(path="/pkg/"); Pkg.resolve(); Pkg.status(); Pkg.instantiate(); Pkg.precompile()'
 

docker/Dockerfile.generic

@@ -2,6 +2,7 @@ FROM julia
 
 ADD README.md Project.toml LICENSE /pkg/
 ADD src/ /pkg/src/
+ADD bin/ /usr/bin/
 
 RUN julia -e 'import Pkg; Pkg.develop(path="/pkg/"); Pkg.resolve(); Pkg.status(); Pkg.instantiate(); Pkg.precompile()'
 

docker/Dockerfile.runfrog

@@ -2,8 +2,8 @@ FROM julia
 
 ADD README.md Project.toml LICENSE /pkg/
 ADD src/ /pkg/src/
-ADD bin/fbcmt-run-frog /usr/bin
+ADD bin/ /usr/bin/
 
-RUN julia -e 'import Pkg; Pkg.add(["GLPK", "Tulip", "Clarabel", "OSQP", "Clp"]); Pkg.develop(path="/pkg/"); Pkg.resolve(); Pkg.status(); Pkg.instantiate(); Pkg.precompile()'
+RUN julia -e 'import Pkg; Pkg.add(["GLPK", "Tulip", "Clarabel", "OSQP", "Clp", "SCIP"]); Pkg.develop(path="/pkg/"); Pkg.resolve(); Pkg.status(); Pkg.instantiate(); Pkg.precompile()'
 
 ENTRYPOINT ["/usr/bin/fbcmt-run-frog"]

docs/Project.toml

@@ -1,2 +1,5 @@
 [deps]
 Documenter = "e30172f5-a6a5-5a46-863b-614d45cd2de4"
+
+[compat]
+Documenter = "<1"