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Hello! This is an automated update of the following workflow: workflows/microbiome/pathogen-identification/allele-based-pathogen-identification. I created this PR because I think one or more of the component tools are out of date, i.e. there is a newer version available on the ToolShed.

By comparing with the latest versions available on the ToolShed, it seems the following tools are outdated:

  • toolshed.g2.bx.psu.edu/repos/iuc/samtools_coverage/samtools_coverage/1.15.1+galaxy2 should be updated to toolshed.g2.bx.psu.edu/repos/iuc/samtools_coverage/samtools_coverage/1.20+galaxy3

The workflow release number has been updated from 0.1.4 to 0.1.5.

If you want to skip this change, close this PR without deleting the branch. It will be reopened if another change is detected.
Any commit from another author than 'planemo-autoupdate' will prevent more auto-updates.
To ignore manual changes and allow autoupdates, delete the branch.

@gxydevbot gxydevbot force-pushed the workflows/microbiome/pathogen-identification/allele-based-pathogen-identification branch from b2c8d30 to bfb7385 Compare June 9, 2025 06:09
@gxydevbot gxydevbot changed the title Updating workflows/microbiome/pathogen-identification/allele-based-pathogen-identification from 0.1.4 to 0.1.5 Updating workflows/microbiome/pathogen-identification/allele-based-pathogen-identification from 0.1.4 to 0.1.5 Jun 9, 2025
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There are new updates, they have been integrated to the PR, check the file diff.

@gxydevbot gxydevbot force-pushed the workflows/microbiome/pathogen-identification/allele-based-pathogen-identification branch from bfb7385 to 0496b79 Compare June 16, 2025 05:43
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There are new updates, they have been integrated to the PR, check the file diff.

@gxydevbot gxydevbot force-pushed the workflows/microbiome/pathogen-identification/allele-based-pathogen-identification branch from 0496b79 to 5da11fd Compare October 8, 2025 00:24
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There are new updates, they have been integrated to the PR, check the file diff.

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