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Umi test #614

Merged
merged 31 commits into from
Jul 17, 2022
Merged

Umi test #614

merged 31 commits into from
Jul 17, 2022

Commits on Jun 28, 2022

  1. Started to work on the umi stuff

    @WackerO
    WackerO committed Jun 28, 2022
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Commits on Jun 30, 2022

  1. Fixed bug in modules.config

    @WackerO
    WackerO committed Jun 30, 2022
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Commits on Jul 1, 2022

  1. Code seems to run now, but had to comment ou the meta id tag from sam… 

    …tools_view
    @WackerO
    WackerO committed Jul 1, 2022
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  2. Reenabled meta.id, fixed DRAGMAP args

    @WackerO
    WackerO committed Jul 1, 2022
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  3. Bugfixing

    @WackerO
    WackerO committed Jul 1, 2022
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Commits on Jul 4, 2022

  1. Finally, it works

    @WackerO
    WackerO committed Jul 4, 2022
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  2. Merge branch 'dev' of https://github.com/nf-core/sarek into umi

    @WackerO
    WackerO committed Jul 4, 2022
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  3. Removed changes to module

    @WackerO
    WackerO committed Jul 4, 2022
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  4. Updated test_umi.yaml

    @WackerO
    WackerO committed Jul 4, 2022
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Commits on Jul 11, 2022

  1. This newer container version should make fgbio work

    @WackerO
    WackerO committed Jul 11, 2022
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  2. Merge branch 'dev' of https://github.com/nf-core/sarek into umi

    @WackerO
    WackerO committed Jul 11, 2022
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  3. Restored fgbio module, updated test_umi.yml

    @WackerO
    WackerO committed Jul 11, 2022
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Commits on Jul 12, 2022

  1. Updated fgbio

    @WackerO
    WackerO committed Jul 12, 2022
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  2. Merge branch 'dev' of https://github.com/nf-core/sarek into umi

    @WackerO
    WackerO committed Jul 12, 2022
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  3. Bug-fixing

    @WackerO
    WackerO committed Jul 12, 2022
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Commits on Jul 13, 2022

  1. Still bugfixing

    @WackerO
    WackerO committed Jul 13, 2022
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  2. Commented out the umi ci test as it currently produces an error in py… 

    …test but the umi function works when called directly with nextflow
    @WackerO
    WackerO committed Jul 13, 2022
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  3. Merge branch 'dev' of https://github.com/nf-core/sarek into umi

    @WackerO
    WackerO committed Jul 13, 2022
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  4. Reverted module changes

    @WackerO
    WackerO committed Jul 13, 2022
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Commits on Jul 14, 2022

  1. Updated the fgbio modules

    @WackerO
    WackerO committed Jul 14, 2022
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  2. Merge branch 'dev' of https://github.com/nf-core/sarek into umi

    @WackerO
    WackerO committed Jul 14, 2022
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  3. Testing if the new containers make umi work

    @WackerO
    WackerO committed Jul 14, 2022
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  4. Nope, still snappy error

    @WackerO
    WackerO committed Jul 14, 2022
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Commits on Jul 15, 2022

  1. Merge branch 'dev' of https://github.com/nf-core/sarek into umi

    @WackerO
    WackerO committed Jul 15, 2022
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  2. Updated modules and reenabled umi in ci.yml; hopefully the test passe… 

    …s now
    @WackerO
    WackerO committed Jul 15, 2022
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  3. Updated test checksums for umi

    @WackerO
    WackerO committed Jul 15, 2022
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  4. Fixed typo in md5sum

    @WackerO
    WackerO committed Jul 15, 2022
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Commits on Jul 17, 2022

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

    @FriederikeHanssen
    FriederikeHanssen committed Jul 17, 2022
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  2. update umi checksums

    @FriederikeHanssen
    FriederikeHanssen committed Jul 17, 2022
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  3. no need to overwrite the dragmap prefix, it is the same

    @FriederikeHanssen
    FriederikeHanssen committed Jul 17, 2022
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  4. remove checksum for collated bam file

    @FriederikeHanssen
    FriederikeHanssen committed Jul 17, 2022
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