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Release 1.0.0#8

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charles-plessy merged 54 commits intomasternf-core/pairgenomealign:masterfrom devnf-core/pairgenomealign:devCopy head branch name to clipboardAug 27, 2024

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Commits on Jul 19, 2024

• Release 1.0.0

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Commits on Jul 23, 2024

• Remove the PSEUDO seed from the schema.

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Commits on Jul 24, 2024

• Correct duplicated text

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• Reduce redundancy with doc/output.md as suggested in PR #9.

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• Also cite the paper describing the original implementation.

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• Correct the list of accepted file suffixes

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• Remove mention of unported parameters.

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• Improve wording of docs/usage.md

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• Mention --input explicitely

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• Fix typo

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• Fix markdown formatting.

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• modified the pipeline logo, now png formatted

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• modified the pipeline logo, now png formatted

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• added the new svg formatted pipeline logo/map

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• Merge pull request #10 from oist/devop

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• Merge branch 'dev' of github.com:nf-core/pairgenomealign into dev

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• Indent workflows/pairgenomealign.nf

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• Remove un-needed example

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• Remove dangling filename.

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• Show the full sample sheet as an example.

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• Multi-query example

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• Slim nextflow.config

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• Move LAST output to alignment/

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• Merge branch 'dev' of github.com:nf-core/pairgenomealign into dev

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• Put seqtk cutN output in cutn/ and document it.

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• Remove mention of FastQC

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• [automated] Fix code linting

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• Remove duplicated documentation.

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• Merge branch 'dev' of github.com:nf-core/pairgenomealign into dev

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• Fix typo

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Commits on Jul 25, 2024

• Add a human–monkey alignment as example.

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• Update workflows/pairgenomealign.nf

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• Rename the custom module and document its output.

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• Merge branch 'dev' of github.com:nf-core/pairgenomealign into dev

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• Revert "Update workflows/pairgenomealign.nf"

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• Polish parameter description.

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• Move tube map to docs/ hoping it solves display problem.

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• Add an example dot-plot

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• Remove FASTQC examples.

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• Add new multiqc examples

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• Merge branch 'dev' of github.com:nf-core/pairgenomealign into dev

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• Display example MultiQC plots

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• prettier

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• modified the logomap again as advised by nfcore team

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Commits on Jul 26, 2024

• Merge pull request #13 from oist/devlogo

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• Add a codename

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• Fix filename

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• Merge branch 'dev' of github.com:nf-core/pairgenomealign into dev

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• Use a Markdown link instead of HTML.

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• pre-commit fixes

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Commits on Aug 7, 2024

• Rename and document some table columns

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• Thank Martin and teammates

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Commits on Aug 8, 2024

• Remove mention of lastdb -P because it does not impact the alignment files

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Commits on Aug 26, 2024

• Update release date in CHANGELOG.md

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