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Control-FREEC improvements #196

Closed
wants to merge 62 commits into from
Closed

Control-FREEC improvements #196

wants to merge 62 commits into from

Commits on Oct 17, 2019

  1. added script to help downstream analysis, adding RankScore for Scout

    Szilveszter Juhos committed Oct 17, 2019
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  2. Merge remote-tracking branch 'upstream/dev'

    Szilveszter Juhos committed Oct 17, 2019
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Commits on Oct 18, 2019

  1. nf-core#51 CHANGELOG

    Szilveszter Juhos committed Oct 18, 2019
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Commits on Oct 21, 2019

  1. Merge branch 'dev' into master

    @maxulysse
    maxulysse committed Oct 21, 2019
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  2. nf-core bump-version . 2.5.1

    @maxulysse
    maxulysse committed Oct 21, 2019
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  3. fix script name in docs

    @maxulysse
    maxulysse committed Oct 21, 2019
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  4. fix markdownlint

    @maxulysse
    maxulysse committed Oct 21, 2019
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  5. fix autoMounts in singularity profile, closes nf-core#48

    @maxulysse
    maxulysse committed Oct 21, 2019
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  6. fix path to script, close nf-core#50

    @maxulysse
    maxulysse committed Oct 21, 2019
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  7. build 2.5.1 version of annotation containers

    @maxulysse
    maxulysse committed Oct 21, 2019
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  8. add patch to branch protection

    @maxulysse
    maxulysse committed Oct 21, 2019
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  9. pull image 2.5,tag it as 2.5.1

    @maxulysse
    maxulysse committed Oct 21, 2019
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  10. pull image 2.5,tag it as 2.5.1

    @maxulysse
    maxulysse committed Oct 21, 2019
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  11. use correct tag for containers close nf-core#49

    @maxulysse
    maxulysse committed Oct 21, 2019
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  12. bump version to 2.5.1

    @maxulysse
    maxulysse committed Oct 21, 2019
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  13. update script name

    @maxulysse
    maxulysse committed Oct 21, 2019
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  14. update docs

    @maxulysse
    maxulysse committed Oct 21, 2019
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  15. update CHANGELOG

    @maxulysse
    maxulysse committed Oct 21, 2019
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  16. always download nfcore/sarek

    @maxulysse
    maxulysse committed Oct 21, 2019
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Commits on Oct 22, 2019

  1. Try to fix branch protection

    @maxulysse
    maxulysse committed Oct 22, 2019
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  2. Group checks

    @maxulysse
    maxulysse committed Oct 22, 2019
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  3. rewrote test

    @maxulysse
    maxulysse committed Oct 22, 2019
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  4. This time it'll work

    @maxulysse
    maxulysse committed Oct 22, 2019
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  5. Typo

    @maxulysse
    maxulysse committed Oct 22, 2019
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  6. Update .github/workflows/branch.yml

    @maxulysse
    maxulysse committed Oct 22, 2019
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  7. Update .github/workflows/branch.yml

    @maxulysse
    maxulysse committed Oct 22, 2019
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  8. fix travis branch protection

    @maxulysse
    maxulysse committed Oct 22, 2019
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  9. Merge pull request nf-core#53 from MaxUlysse/patch 

    Prepare release 2.5.1
    @maxulysse
    maxulysse committed Oct 22, 2019
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Commits on Oct 31, 2019

  1. Merge remote-tracking branch 'upstream/dev'

    Szilveszter Juhos committed Oct 31, 2019
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Commits on Nov 8, 2019

  1. Update README.md

    @maxulysse
    maxulysse committed Nov 8, 2019
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Commits on Dec 16, 2019

  1. Merge branch 'master' into dev

    @maxulysse
    maxulysse committed Dec 16, 2019
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  2. Merge branch 'dev'

    @maxulysse
    maxulysse committed Dec 16, 2019
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Commits on Dec 18, 2019

  1. Merge remote-tracking branch 'upstream/master'

    Szilveszter Juhos committed Dec 18, 2019
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  2. Merge remote-tracking branch 'upstream/dev' into dev

    Szilveszter Juhos committed Dec 18, 2019
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  3. reducing CPU usage for Mpileup

    Szilveszter Juhos committed Dec 18, 2019
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  4. Merge remote-tracking branch 'upstream/dev'

    Szilveszter Juhos committed Dec 18, 2019
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  5. Merge remote-tracking branch 'upstream/dev' into dev

    Szilveszter Juhos committed Dec 18, 2019
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  6. Merge branch 'dev' of github.com:szilvajuhos/sarek into dev

    Szilveszter Juhos committed Dec 18, 2019
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  7. Merge remote-tracking branch 'upstream/dev'

    Szilveszter Juhos committed Dec 18, 2019
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  8. Merge branch 'dev'

    Szilveszter Juhos committed Dec 18, 2019
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  9. cleanup with meld

    Szilveszter Juhos committed Dec 18, 2019
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  10. Update docs/downstream.md 

    Co-Authored-By: Maxime Garcia <maxime.garcia@scilifelab.se>
    @maxulysse
    Szilveszter Juhos and maxulysse committed Dec 18, 2019
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  11. Update docs/downstream.md 

    Co-Authored-By: Maxime Garcia <maxime.garcia@scilifelab.se>
    @maxulysse
    Szilveszter Juhos and maxulysse committed Dec 18, 2019
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  12. some docs additions

    Szilveszter Juhos committed Dec 18, 2019
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  13. Merge branch 'master' of github.com:szilvajuhos/sarek

    Szilveszter Juhos committed Dec 18, 2019
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  14. Update docs/downstream.md 

    Co-Authored-By: Maxime Garcia <maxime.garcia@scilifelab.se>
    @maxulysse
    Szilveszter Juhos and maxulysse committed Dec 18, 2019
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  15. Update docs/downstream.md 

    Co-Authored-By: Maxime Garcia <maxime.garcia@scilifelab.se>
    @maxulysse
    Szilveszter Juhos and maxulysse committed Dec 18, 2019
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  16. Update docs/downstream.md 

    Co-Authored-By: Maxime Garcia <maxime.garcia@scilifelab.se>
    @maxulysse
    Szilveszter Juhos and maxulysse committed Dec 18, 2019
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  17. Update docs/downstream.md 

    Co-Authored-By: Maxime Garcia <maxime.garcia@scilifelab.se>
    @maxulysse
    Szilveszter Juhos and maxulysse committed Dec 18, 2019
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  18. Update docs/downstream.md 

    Co-Authored-By: Maxime Garcia <maxime.garcia@scilifelab.se>
    @maxulysse
    Szilveszter Juhos and maxulysse committed Dec 18, 2019
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  19. Update docs/downstream.md 

    Co-Authored-By: Maxime Garcia <maxime.garcia@scilifelab.se>
    @maxulysse
    Szilveszter Juhos and maxulysse committed Dec 18, 2019
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  20. added extra space

    Szilveszter Juhos committed Dec 18, 2019
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  21. Merge branch 'master' of github.com:szilvajuhos/sarek

    Szilveszter Juhos committed Dec 18, 2019
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Commits on Jan 24, 2020

  1. Merge branch 'dev' into master

    @maxulysse
    maxulysse committed Jan 24, 2020
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Commits on Apr 21, 2020

  1. merge conflict resolved

    Szilveszter Juhos committed Apr 21, 2020
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Commits on Apr 22, 2020

  1. Merge remote-tracking branch 'upstream/dev' into CF

    Szilveszter Juhos committed Apr 22, 2020
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  2. First time CF is working with extra pileups

    Szilveszter Juhos committed Apr 22, 2020
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Commits on Apr 24, 2020

  1. First working version

    Szilveszter Juhos committed Apr 24, 2020
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  2. Merge remote-tracking branch 'upstream/dev' into CF

    Szilveszter Juhos committed Apr 24, 2020
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  3. Removing nf-core#51 and moving downstream to szilvajuhos/btb-scripts

    Szilveszter Juhos committed Apr 24, 2020
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  4. Fixing some null parameters and C&P typos

    Szilveszter Juhos committed Apr 24, 2020
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Commits on Apr 27, 2020

  1. yet an other version that somehow worked

    Szilveszter Juhos committed Apr 27, 2020
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