diff --git a/workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b/CHANGELOG.md b/workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b/CHANGELOG.md index dfd55b7f67..3b50058f54 100644 --- a/workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b/CHANGELOG.md +++ b/workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b/CHANGELOG.md @@ -1,5 +1,10 @@ # Changelog +## [0.8.5] - 2025-10-06 + +### Automatic update +- `toolshed.g2.bx.psu.edu/repos/iuc/busco/busco/5.8.0+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/busco/busco/5.8.0+galaxy2` + ## [0.8.4] - 2025-09-29 ### Automatic update diff --git a/workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b/Purging-duplicates-one-haplotype-VGP6b.ga b/workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b/Purging-duplicates-one-haplotype-VGP6b.ga index c21ba1a32c..de32506d73 100644 --- a/workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b/Purging-duplicates-one-haplotype-VGP6b.ga +++ b/workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b/Purging-duplicates-one-haplotype-VGP6b.ga @@ -584,7 +584,16 @@ "output_name": "output" } }, - "inputs": [], + "inputs": [ + { + "description": "runtime parameter for tool Map with minimap2", + "name": "fastq_input" + }, + { + "description": "runtime parameter for tool Map with minimap2", + "name": "reference_source" + } + ], "label": null, "name": "Map with minimap2", "outputs": [ @@ -636,7 +645,12 @@ "output_name": "output" } }, - "inputs": [], + "inputs": [ + { + "description": "runtime parameter for tool Purge overlaps", + "name": "function_select" + } + ], "label": null, "name": "Purge overlaps", "outputs": [ @@ -905,7 +919,16 @@ "output_name": "split_fasta" } }, - "inputs": [], + "inputs": [ + { + "description": "runtime parameter for tool Map with minimap2", + "name": "fastq_input" + }, + { + "description": "runtime parameter for tool Map with minimap2", + "name": "reference_source" + } + ], "label": null, "name": "Map with minimap2", "outputs": [ @@ -1310,7 +1333,7 @@ } }, "tags": [], - "uuid": "0a6a7d53-6e4a-46e0-af6b-3e39bcc3ac88" + "uuid": "ac994370-7451-4b40-b805-54d69ba527e6" }, "tool_id": null, "type": "subworkflow", @@ -1530,7 +1553,12 @@ "output_name": "integer_param" } }, - "inputs": [], + "inputs": [ + { + "description": "runtime parameter for tool Purge overlaps", + "name": "function_select" + } + ], "label": null, "name": "Purge overlaps", "outputs": [ @@ -1651,7 +1679,20 @@ "output_name": "alignment_output" } }, - "inputs": [], + "inputs": [ + { + "description": "runtime parameter for tool Purge overlaps", + "name": "function_select" + }, + { + "description": "runtime parameter for tool Purge overlaps", + "name": "function_select" + }, + { + "description": "runtime parameter for tool Purge overlaps", + "name": "function_select" + } + ], "label": null, "name": "Purge overlaps", "outputs": [ @@ -1760,7 +1801,16 @@ "output_name": "output" } }, - "inputs": [], + "inputs": [ + { + "description": "runtime parameter for tool Purge overlaps", + "name": "function_select" + }, + { + "description": "runtime parameter for tool Purge overlaps", + "name": "function_select" + } + ], "label": null, "name": "Purge overlaps", "outputs": [ @@ -1858,7 +1908,12 @@ "output_name": "output" } }, - "inputs": [], + "inputs": [ + { + "description": "runtime parameter for tool Merqury", + "name": "mode" + } + ], "label": null, "name": "Merqury", "outputs": [ @@ -2027,7 +2082,7 @@ }, "36": { "annotation": "", - "content_id": "toolshed.g2.bx.psu.edu/repos/iuc/busco/busco/5.8.0+galaxy1", + "content_id": "toolshed.g2.bx.psu.edu/repos/iuc/busco/busco/5.8.0+galaxy2", "errors": null, "id": 36, "input_connections": { @@ -2044,7 +2099,12 @@ "output_name": "output" } }, - "inputs": [], + "inputs": [ + { + "description": "runtime parameter for tool Busco", + "name": "lineage" + } + ], "label": null, "name": "Busco", "outputs": [ @@ -2110,15 +2170,15 @@ "output_name": "summary_image" } }, - "tool_id": "toolshed.g2.bx.psu.edu/repos/iuc/busco/busco/5.8.0+galaxy1", + "tool_id": "toolshed.g2.bx.psu.edu/repos/iuc/busco/busco/5.8.0+galaxy2", "tool_shed_repository": { - "changeset_revision": "4e70d88adf2f", + "changeset_revision": "c5a90fa4b8dd", "name": "busco", "owner": "iuc", "tool_shed": "toolshed.g2.bx.psu.edu" }, "tool_state": "{\"adv\": {\"evalue\": \"0.001\", \"limit\": \"3\", \"contig_break\": \"10\"}, \"busco_mode\": {\"mode\": \"geno\", \"__current_case__\": 0, \"use_augustus\": {\"use_augustus_selector\": \"metaeuk\", \"__current_case__\": 0}}, \"cached_db\": {\"__class__\": \"ConnectedValue\"}, \"input\": {\"__class__\": \"ConnectedValue\"}, \"lineage\": {\"lineage_mode\": \"select_lineage\", \"__current_case__\": 1, \"lineage_dataset\": {\"__class__\": \"ConnectedValue\"}}, \"outputs\": [\"short_summary\", \"missing\", \"image\", \"gff\"], \"test\": null, \"__page__\": 0, \"__rerun_remap_job_id__\": null}", - "tool_version": "5.8.0+galaxy1", + "tool_version": "5.8.0+galaxy2", "type": "tool", "uuid": "73b62ef3-0002-418e-9f10-22076c1e48f3", "when": null, @@ -2146,7 +2206,12 @@ "output_name": "get_seqs_purged" } }, - "inputs": [], + "inputs": [ + { + "description": "runtime parameter for tool gfastats", + "name": "mode_condition" + } + ], "label": "Convert purged fasta to gfa", "name": "gfastats", "outputs": [ @@ -3056,7 +3121,7 @@ } }, "tags": [], - "uuid": "5bb3beb9-a051-469d-8ee2-dbbfae0389ff" + "uuid": "bf1007ed-bad0-4d7f-8944-889cb06f555d" }, "tool_id": null, "type": "subworkflow", @@ -3619,7 +3684,7 @@ } }, "tags": [], - "uuid": "e15b06a1-0673-4e2c-ae70-dee3835ba909" + "uuid": "6bbd7fb5-3f5e-4fc5-b737-f4e5b92e825e" }, "tool_id": null, "type": "subworkflow", @@ -3796,7 +3861,7 @@ "tags": [ "VGP_curated" ], - "uuid": "882b18ac-4a8c-4cf1-8c63-a85260bc37b9", + "uuid": "67e892d1-6fde-4fbb-9fca-2aa0f0baa0d7", "version": 1, - "release": "0.8.4" -} + "release": "0.8.5" +} \ No newline at end of file