Merge pull request #597 from planemo-autoupdate/workflows/genome-asse…

…mbly/bacterial-genome-assembly Updating workflows/genome-assembly/bacterial-genome-assembly from 1.1.4 to 1.1.5
galaxyproject · Nov 25, 2024 · f56c6ef · f56c6ef
2 parents f140bc4 + 237f913
commit f56c6ef
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diff --git a/workflows/genome-assembly/bacterial-genome-assembly/CHANGELOG.md b/workflows/genome-assembly/bacterial-genome-assembly/CHANGELOG.md
@@ -1,5 +1,10 @@
 # Changelog
 
+## [1.1.5] 2024-11-18
+
+### Automatic update
+- `toolshed.g2.bx.psu.edu/repos/iuc/quast/quast/5.2.0+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/quast/quast/5.3.0+galaxy0`
+
 ## [1.1.4] 2024-10-21
 
 ### Automatic update

diff --git a/workflows/genome-assembly/bacterial-genome-assembly/bacterial_genome_assembly.ga b/workflows/genome-assembly/bacterial-genome-assembly/bacterial_genome_assembly.ga
@@ -26,7 +26,7 @@
         }
     ],
     "format-version": "0.1",
-    "release": "1.1.4",
+    "release": "1.1.5",
     "license": "GPL-3.0-or-later",
     "name": "Bacterial Genome Assembly using Shovill",
     "steps": {
@@ -235,7 +235,7 @@
         },
         "3": {
             "annotation": "quast_quality",
-            "content_id": "toolshed.g2.bx.psu.edu/repos/iuc/quast/quast/5.2.0+galaxy1",
+            "content_id": "toolshed.g2.bx.psu.edu/repos/iuc/quast/quast/5.3.0+galaxy0",
             "errors": null,
             "id": 3,
             "input_connections": {
@@ -335,15 +335,15 @@
                     "output_name": "report_tabular"
                 }
             },
-            "tool_id": "toolshed.g2.bx.psu.edu/repos/iuc/quast/quast/5.2.0+galaxy1",
+            "tool_id": "toolshed.g2.bx.psu.edu/repos/iuc/quast/quast/5.3.0+galaxy0",
             "tool_shed_repository": {
-                "changeset_revision": "72472698a2df",
+                "changeset_revision": "a3b35edea53a",
                 "name": "quast",
                 "owner": "iuc",
                 "tool_shed": "toolshed.g2.bx.psu.edu"
             },
             "tool_state": "{\"advanced\": {\"contig_thresholds\": \"0,1000\", \"strict_NA\": false, \"extensive_mis_size\": \"1000\", \"scaffold_gap_max_size\": \"1000\", \"unaligned_part_size\": \"500\", \"skip_unaligned_mis_contigs\": true, \"fragmented_max_indent\": null, \"report_all_metrics\": false, \"x_for_Nx\": \"90\"}, \"alignments\": {\"use_all_alignments\": false, \"min_alignment\": \"65\", \"ambiguity_usage\": \"one\", \"ambiguity_score\": \"0.99\", \"fragmented\": false, \"upper_bound_assembly\": false, \"upper_bound_min_con\": null, \"local_mis_size\": \"200\"}, \"assembly\": {\"type\": \"genome\", \"__current_case__\": 0, \"ref\": {\"use_ref\": \"false\", \"__current_case__\": 1, \"est_ref_size\": null}, \"orga_type\": \"\", \"min_identity\": \"95.0\"}, \"genes\": {\"gene_finding\": {\"tool\": \"none\", \"__current_case__\": 0}, \"rna_finding\": false, \"conserved_genes_finding\": true}, \"large\": false, \"min_contig\": \"500\", \"mode\": {\"mode\": \"individual\", \"__current_case__\": 0, \"in\": {\"custom\": \"false\", \"__current_case__\": 1, \"inputs\": {\"__class__\": \"ConnectedValue\"}}, \"reads\": {\"reads_option\": \"paired\", \"__current_case__\": 2, \"input_1\": {\"__class__\": \"ConnectedValue\"}, \"input_2\": {\"__class__\": \"ConnectedValue\"}}}, \"output_files\": [\"html\", \"pdf\", \"tabular\", \"log\", \"summary\", \"krona\"], \"split_scaffolds\": false, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
-            "tool_version": "5.2.0+galaxy1",
+            "tool_version": "5.3.0+galaxy0",
             "type": "tool",
             "uuid": "94a29697-b779-4cf4-a25c-c59f7f88325c",
             "when": null,