From 92faeee727d429679251dedb4543a4a0ba1fe989 Mon Sep 17 00:00:00 2001 From: planemo-autoupdate Date: Mon, 10 Nov 2025 08:25:18 +0000 Subject: [PATCH] Updating workflows/genome-assembly/bacterial-genome-assembly from 2.0 to 2.1 --- .../bacterial-genome-assembly/CHANGELOG.md | 6 ++++ .../bacterial_genome_assembly.ga | 31 ++++++++----------- 2 files changed, 19 insertions(+), 18 deletions(-) diff --git a/workflows/genome-assembly/bacterial-genome-assembly/CHANGELOG.md b/workflows/genome-assembly/bacterial-genome-assembly/CHANGELOG.md index d5bca11377..bfd15541b3 100644 --- a/workflows/genome-assembly/bacterial-genome-assembly/CHANGELOG.md +++ b/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 diff --git a/workflows/genome-assembly/bacterial-genome-assembly/bacterial_genome_assembly.ga b/workflows/genome-assembly/bacterial-genome-assembly/bacterial_genome_assembly.ga index b993b226fb..80bac0dcb6 100644 --- a/workflows/genome-assembly/bacterial-genome-assembly/bacterial_genome_assembly.ga +++ b/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" } \ No newline at end of file