New wf_notebook_N system

bioexcel · Aug 8, 2024 · f20275d · f20275d
1 parent a1f9b8f
commit f20275d
Showing 1 changed file with 4 additions and 4 deletions.
diff --git a/.github/workflows/docker.yaml b/.github/workflows/docker.yaml
@@ -21,20 +21,20 @@ jobs:
           cp common/docker/Dockerfile biobb_wf_amber_md_setup/docker/Dockerfile
           cp common/docker/Dockerfile biobb_wf_amber_md_setup_lig/docker/Dockerfile
           cp common/docker/Dockerfile biobb_wf_cmip/docker/Dockerfile
-          sed -i '77a\        cp -r /data/Files /data/wf_notebook/Files; \\' biobb_wf_cmip/docker/Dockerfile
+          sed -i '77a\        cp -r /data/Files /data/\\"$dir\\"/Files; \\' biobb_wf_cmip/docker/Dockerfile
           cp common/docker/Dockerfile biobb_wf_dna_helparms/docker/Dockerfile
           sed -i '41a# Copy the .curvesplus folder into the Docker image' biobb_wf_dna_helparms/docker/Dockerfile
           sed -i '42aCOPY .curvesplus /opt/conda/envs/$REPOSITORY' biobb_wf_dna_helparms/docker/Dockerfile
           sed -i '43a\\' biobb_wf_dna_helparms/docker/Dockerfile
-          sed -i '80a\        cp -r /data/TRAJ /data/wf_notebook/TRAJ; \\' biobb_wf_dna_helparms/docker/Dockerfile
+          sed -i '80a\        cp -r /data/TRAJ /data/\\"$dir\\"/TRAJ; \\' biobb_wf_dna_helparms/docker/Dockerfile
           cp common/docker/Dockerfile biobb_wf_flexdyn/docker/Dockerfile
           cp common/docker/Dockerfile biobb_wf_flexserv/docker/Dockerfile
-          sed -i '77a\        cp -r /data/Files /data/wf_notebook/Files; \\' biobb_wf_flexserv/docker/Dockerfile
+          sed -i '77a\        cp -r /data/Files /data/\\"$dir\\"/Files; \\' biobb_wf_flexserv/docker/Dockerfile
           cp common/docker/Dockerfile biobb_wf_godmd/docker/Dockerfile
           cp common/docker/Dockerfile biobb_wf_ligand_parameterization/docker/Dockerfile
           cp common/docker/Dockerfile biobb_wf_md_setup/docker/Dockerfile
           cp common/docker/Dockerfile biobb_wf_pmx_tutorial/docker/Dockerfile
-          sed -i '77a\        cp -r /data/pmx_tutorial /data/wf_notebook/pmx_tutorial; \\' biobb_wf_pmx_tutorial/docker/Dockerfile
+          sed -i '77a\        cp -r /data/pmx_tutorial /data/\\"$dir\\"/pmx_tutorial; \\' biobb_wf_pmx_tutorial/docker/Dockerfile
           cp common/docker/Dockerfile biobb_wf_protein-complex_md_setup/docker/Dockerfile
           cp common/docker/Dockerfile biobb_wf_structure_checking/docker/Dockerfile
           cp common/docker/Dockerfile biobb_wf_virtual-screening_fpocket/docker/Dockerfile