Updating workflows/genome-assembly/bacterial-genome-assembly from 2.0 to 2.1

Author: planemo-autoupdate

workflows/genome-assembly/bacterial-genome-assembly/CHANGELOG.md

@@ -1,5 +1,11 @@
 # Changelog
 
+## [2.1] - 2025-11-10
+
+### Automatic update
+- `toolshed.g2.bx.psu.edu/repos/iuc/tooldistillator/tooldistillator/1.0.0+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/tooldistillator/tooldistillator/1.0.4+galaxy0`
+- `toolshed.g2.bx.psu.edu/repos/iuc/tooldistillator_summarize/tooldistillator_summarize/1.0.0+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/tooldistillator_summarize/tooldistillator_summarize/1.0.4+galaxy0`
+
 ## [2.0] - 2025-08-11
 
 ### Removed

workflows/genome-assembly/bacterial-genome-assembly/bacterial_genome_assembly.ga

@@ -355,7 +355,7 @@
         },
         "5": {
             "annotation": "ToolDistillator extracts results from tools and creates a JSON file for each tool",
-            "content_id": "toolshed.g2.bx.psu.edu/repos/iuc/tooldistillator/tooldistillator/1.0.0+galaxy1",
+            "content_id": "toolshed.g2.bx.psu.edu/repos/iuc/tooldistillator/tooldistillator/1.0.4+galaxy0",
             "errors": null,
             "id": 5,
             "input_connections": {
@@ -409,15 +409,15 @@
                     "output_name": "output_json"
                 }
             },
-            "tool_id": "toolshed.g2.bx.psu.edu/repos/iuc/tooldistillator/tooldistillator/1.0.0+galaxy1",
+            "tool_id": "toolshed.g2.bx.psu.edu/repos/iuc/tooldistillator/tooldistillator/1.0.4+galaxy0",
             "tool_shed_repository": {
-                "changeset_revision": "c6b5c2975e51",
+                "changeset_revision": "9f1c8dc0253e",
                 "name": "tooldistillator",
                 "owner": "iuc",
                 "tool_shed": "toolshed.g2.bx.psu.edu"
             },
-            "tool_state": "{\"log\": false, \"tool_section\": {\"tools\": [{\"__index__\": 0, \"select_tool\": {\"tool_list\": \"shovill\", \"__current_case__\": 36, \"input\": {\"__class__\": \"RuntimeValue\"}, \"contig_graph_path\": {\"__class__\": \"RuntimeValue\"}, \"bam_file_path\": {\"__class__\": \"RuntimeValue\"}, \"origin\": {\"origin\": \"false\", \"__current_case__\": 1}, \"reference_database_version\": null}}, {\"__index__\": 1, \"select_tool\": {\"tool_list\": \"bandage\", \"__current_case__\": 4, \"input\": {\"__class__\": \"RuntimeValue\"}, \"bandage_plot_path\": {\"__class__\": \"RuntimeValue\"}, \"origin\": {\"origin\": \"false\", \"__current_case__\": 1}, \"reference_database_version\": null}}]}, \"__page__\": 0, \"__rerun_remap_job_id__\": null}",
-            "tool_version": "1.0.0+galaxy1",
+            "tool_state": "{\"log\": false, \"tool_section\": {\"tools\": [{\"__index__\": 0, \"select_tool\": {\"tool_list\": \"shovill\", \"__current_case__\": 36, \"input\": {\"__class__\": \"ConnectedValue\"}, \"contig_graph_path\": {\"__class__\": \"ConnectedValue\"}, \"bam_file_path\": {\"__class__\": \"ConnectedValue\"}, \"origin\": {\"origin\": \"false\", \"__current_case__\": 1}, \"reference_database_version\": null}}, {\"__index__\": 1, \"select_tool\": {\"tool_list\": \"bandage\", \"__current_case__\": 4, \"input\": {\"__class__\": \"ConnectedValue\"}, \"bandage_plot_path\": {\"__class__\": \"ConnectedValue\"}, \"origin\": {\"origin\": \"false\", \"__current_case__\": 1}, \"reference_database_version\": null}}]}, \"__page__\": 0, \"__rerun_remap_job_id__\": null}",
+            "tool_version": "1.0.4+galaxy0",
             "type": "tool",
             "uuid": "b6156c8e-5048-41e3-90d9-f9302734c3d1",
             "when": null,
@@ -431,7 +431,7 @@
         },
         "6": {
             "annotation": "ToolDistillator summarize groups all JSON file into a unique JSON file",
-            "content_id": "toolshed.g2.bx.psu.edu/repos/iuc/tooldistillator_summarize/tooldistillator_summarize/1.0.0+galaxy1",
+            "content_id": "toolshed.g2.bx.psu.edu/repos/iuc/tooldistillator_summarize/tooldistillator_summarize/1.0.4+galaxy0",
             "errors": null,
             "id": 6,
             "input_connections": {
@@ -440,12 +440,7 @@
                     "output_name": "output_json"
                 }
             },
-            "inputs": [
-                {
-                    "description": "runtime parameter for tool ToolDistillator Summarize",
-                    "name": "summarize_data"
-                }
-            ],
+            "inputs": [],
             "label": "ToolDistillator summarize",
             "name": "ToolDistillator Summarize",
             "outputs": [
@@ -474,15 +469,15 @@
                     "output_name": "summary_json"
                 }
             },
-            "tool_id": "toolshed.g2.bx.psu.edu/repos/iuc/tooldistillator_summarize/tooldistillator_summarize/1.0.0+galaxy1",
+            "tool_id": "toolshed.g2.bx.psu.edu/repos/iuc/tooldistillator_summarize/tooldistillator_summarize/1.0.4+galaxy0",
             "tool_shed_repository": {
-                "changeset_revision": "3d0223265277",
+                "changeset_revision": "f4f71128f097",
                 "name": "tooldistillator_summarize",
                 "owner": "iuc",
                 "tool_shed": "toolshed.g2.bx.psu.edu"
             },
-            "tool_state": "{\"summarize_data\": {\"__class__\": \"RuntimeValue\"}, \"__page__\": 0, \"__rerun_remap_job_id__\": null}",
-            "tool_version": "1.0.0+galaxy1",
+            "tool_state": "{\"summarize_data\": {\"__class__\": \"ConnectedValue\"}, \"__page__\": 0, \"__rerun_remap_job_id__\": null}",
+            "tool_version": "1.0.4+galaxy0",
             "type": "tool",
             "uuid": "3bbe0eba-b6bb-4d43-ab57-2b899b8112ae",
             "when": null,
@@ -504,7 +499,7 @@
         "quality",
         "ABRomics"
     ],
-    "uuid": "14fc2baa-a9fb-4e90-a8ec-f542faf1d8c2",
+    "uuid": "5991580d-0dee-44f7-9df0-fa785743b942",
     "version": 1,
-    "release": "2.0"
+    "release": "2.1"
 }