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Commits on Jan 27, 2025

• Merge pull request #1 from wtsi-npg/devel

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Commits on Oct 24, 2024

• Merge pull request #357 from dozy/nchs_fastq

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  jidur

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Commits on Oct 22, 2024

• add dummy value for incrams parameter when using FASTQ input

  dozy

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Commits on Oct 18, 2024

• Merge pull request #356 from dkj/wtf

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  dozy

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• add static parameters file for container nchs reanalysis with FASTQ input

  dozy

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Commits on Oct 17, 2024

• add FASTQ input option to non-consented human split analysis

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  dozy

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Commits on Oct 14, 2024

• add new P4 explainer README.md

  dkj

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• Merge pull request #355 from dozy/cont_analyses_static_data

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  dkj

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Commits on Oct 11, 2024

• downgrade bwa version to 0.7.17 (from 0.7.18) to match current DD production version of bwa

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  dozy

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• add static data for analyses:

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  dozy

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Commits on Oct 2, 2024

• Merge pull request #354 from wtsi-npg/dependabot/github_actions/actions/upload-artifact-4

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  kjsanger

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• Merge pull request #352 from wtsi-npg/dependabot/github_actions/actions/cache-4

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  kjsanger

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• Merge pull request #353 from wtsi-npg/dependabot/github_actions/actions/checkout-4

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  kjsanger

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• Bump actions/upload-artifact from 3 to 4

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  dependabot[bot]

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• Bump actions/checkout from 3 to 4

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  dependabot[bot]

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• Bump actions/cache from 3 to 4

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  dependabot[bot]

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• Merge pull request #351 from avnishsinghh/dependabot

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  kjsanger

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Commits on Oct 1, 2024

• Added dependabot.yml to auto-update GitHub actions

  avnishsinghh

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Commits on Sep 13, 2024

• Merge pull request #350 from dkj/samtools1.21

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  dozy

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• CI: bump actions/upload-artifact to v3

  dkj

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• container: bump samtools/htslib to 1.21

  dkj

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Commits on Sep 6, 2024

• Merge pull request #349 from dozy/stage2_init_options

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  dozy

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Commits on Sep 5, 2024

• set realignment_switch:0,pp_read2tags:on as as default in base_params_duplexseq param files

  dozy

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Commits on Aug 29, 2024

• static parameter files for stage2 reanalyses (initial set targetting NanoSeq)

  dozy

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• templates to support alternate input processing methods

  dozy

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• alternate subsample methods

  dozy

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• allow selection of subsample methods (for QC)

  dozy

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• allow specification of input processing for stage2 analysis

  dozy

  committed
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• extend template preprocessing to subgraph_io sections (in subgraphs)

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  dozy

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Commits on Aug 7, 2024

• update Changes for release 0.40.0

  dozy

  committed
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• Merge pull request #347 from wtsi-npg/devel

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  dozy

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Commits on Jul 30, 2024

• Merge pull request #346 from avnishsinghh/update_container_labels

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  kjsanger

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Commits on Jul 29, 2024

• update container labels

  avnishsinghh

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Commits on Jul 19, 2024

• Docker with bwa mem2, new bambi (#345)

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  dozy

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Commits on Jun 21, 2024

• Merge pull request #343 from wtsi-npg/bug/dockerfile-fix

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  dozy

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