Merge pull request galaxyproject#456 from planemo-autoupdate/workflow…

…s/microbiome/allele-based-pathogen-identification Updating workflows/microbiome/allele-based-pathogen-identification from 0.1 to 0.2
Delphine-L · Jul 3, 2024 · 43fd8b0 · 43fd8b0
2 parents baa2009 + 865ab77
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diff --git a/...s/microbiome/allele-based-pathogen-identification/Allele-based-Pathogen-Identification.ga b/...s/microbiome/allele-based-pathogen-identification/Allele-based-Pathogen-Identification.ga
@@ -100,7 +100,7 @@
     ],
     "format-version": "0.1",
     "license": "MIT",
-    "release": "0.1",
+    "release": "0.1.1",
     "name": "Allele-based Pathogen Identification",
     "report": {
         "markdown": "# Allele-based Pathogen Identification Workflow Report\nBelow are the results for the Allele based Pathogenic Identification Workflow\n\nThis workflow was run on:\n\n```galaxy\ngenerate_time()\n```\n\nWith Galaxy version:\n\n```galaxy\ngenerate_galaxy_version()\n```\n\n## Workflow Inputs\nThe Perprocessing workflow main output (Collection of all samples reads after quality retaining and hosts filtering), and a FASTA file of the reference genome of the main Pathogen identified in the Gene based Pathogen Identification workflow, or per-known to the user.\n\n## Workflow Output: \n\n### All variants found per sample against the reference genome\n\n```galaxy\nhistory_dataset_display(output=\"extracted_fields_from_the_vcf_output\")\n```\n\n### Number of variants per sample\n\n```galaxy\nhistory_dataset_display(output=\"number_of_variants_per_sample\")\n```\n\n### Mapping mean depth of coverage per sample\n\n```galaxy\nhistory_dataset_display(output=\"mapping_mean_depth_per_sample\")\n```\n\n### Mapping breadth of coverage percentage per sample\n\n```galaxy\nhistory_dataset_display(output=\"mapping_coverage_percentage_per_sample\")\n```\n\n"
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diff --git a/workflows/microbiome/allele-based-pathogen-identification/CHANGELOG.md b/workflows/microbiome/allele-based-pathogen-identification/CHANGELOG.md
@@ -1,5 +1,12 @@
 # Changelog
 
+## [0.1.1] 2024-06-28
+
+### Automatic update
+- `toolshed.g2.bx.psu.edu/repos/iuc/minimap2/minimap2/2.24+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/minimap2/minimap2/2.28+galaxy0`
+- `toolshed.g2.bx.psu.edu/repos/iuc/bcftools_norm/bcftools_norm/1.9+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/bcftools_norm/bcftools_norm/1.15.1+galaxy3`
+- `toolshed.g2.bx.psu.edu/repos/iuc/bcftools_consensus/bcftools_consensus/1.9+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/bcftools_consensus/bcftools_consensus/1.15.1+galaxy3`
+
 ## [0.1] 2024-06-19
 
 First release.