Merge pull request #11 from galaxyproteomics/tut

add training material

Dockerfile

@@ -11,3 +11,18 @@ ADD galaxyp.yaml $GALAXY_ROOT/tools.yaml
 
 RUN install-tools $GALAXY_ROOT/tools.yaml && \
     /tool_deps/_conda/bin/conda clean --tarballs
+
+# Add data library defintion file
+ADD library_data.yaml $GALAXY_ROOT/library_data.yaml
+
+# Add workflows to the Docker image
+ADD ./workflows/* $GALAXY_HOME/workflows/
+
+ENV GALAXY_CONFIG_TOOL_PATH=/galaxy-central/tools/
+
+RUN startup_lite && \
+    galaxy-wait && \
+    workflow-install --workflow_path $GALAXY_HOME/workflows/ -g http://localhost:8080 -u $GALAXY_DEFAULT_ADMIN_USER -p $GALAXY_DEFAULT_ADMIN_PASSWORD && \
+    setup-data-libraries -i $GALAXY_ROOT/library_data.yaml -g http://localhost:8080 -u $GALAXY_DEFAULT_ADMIN_USER -p $GALAXY_DEFAULT_ADMIN_PASSWORD
+
+

galaxyp.yaml

@@ -64,6 +64,8 @@ tools:
 - name: peptideshaker
   owner: galaxyp
   tool_panel_section_label: "PeptideShaker"
+  revisions:
+    - a72c48001f7c
 
 - name: dbbuilder
   owner: galaxyp

library_data.yaml

@@ -0,0 +1,13 @@
+libraries:
+    - name: "Test data"
+      files:
+        - url: https://zenodo.org/record/1098311/files/2016_Jan_12_QE2_45.mgf
+          file_type: mgf
+        - url: https://zenodo.org/record/1098311/files/2016_Jan_12_QE2_46.mgf
+          file_type: mgf
+        - url: https://zenodo.org/record/1098311/files/2016_Jan_12_QE2_46.mgf
+          file_type: mgf
+        - url: https://zenodo.org/record/1098311/files/FASTA_Bering_Strait_Trimmed_metapeptides_cRAP.fasta
+          file_type: fasta
+        - url: https://zenodo.org/record/1098311/files/Gene_Ontology_Terms.tabular
+          file_type: tabular