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PR for Release 2.0.0 #105

Merged
merged 204 commits into from
Jun 17, 2022
Merged

PR for Release 2.0.0 #105

merged 204 commits into from
Jun 17, 2022

Commits on Feb 18, 2021

  1. init dsl2 branch with cellranger modules and subworkflow

    @alexthiery1
    alexthiery1 committed Feb 18, 2021
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Commits on Mar 16, 2021

  1. add test data for cellranger subworkflow

    @alexthiery1
    alexthiery1 committed Mar 16, 2021
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  2. add config for module params and workflow testing

    @alexthiery1
    alexthiery1 committed Mar 16, 2021
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  3. init cellranger subworkflow tests

    @alexthiery1
    alexthiery1 committed Mar 16, 2021
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  4. edit fastq input into cellranger count

    @alexthiery1
    alexthiery1 committed Mar 16, 2021
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  5. init csv metadata module

    @alexthiery1
    alexthiery1 committed Mar 16, 2021
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Commits on Mar 19, 2021

  1. add versions and emit statements to modules

    @alexthiery1
    alexthiery1 committed Mar 19, 2021
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Commits on Apr 14, 2021

  1. initial refactoring

    @KevinMenden
    KevinMenden committed Apr 14, 2021
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  2. initial refactoring

    @KevinMenden
    KevinMenden committed Apr 14, 2021
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  3. started adding modules and building pipeline

    @KevinMenden
    KevinMenden committed Apr 14, 2021
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  4. added more modules

    @KevinMenden
    KevinMenden committed Apr 14, 2021
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  5. move star to local modules

    @KevinMenden
    KevinMenden committed Apr 14, 2021
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Commits on Apr 15, 2021

  1. refactored into different workflows

    @KevinMenden
    KevinMenden committed Apr 15, 2021
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  2. Merge remote-tracking branch 'origin/dev' into feat-dsl2

    @KevinMenden
    KevinMenden committed Apr 15, 2021
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  3. Merge pull request #1 from KevinMenden/feat-dsl2 

    Feat dsl2
    @KevinMenden
    KevinMenden authored Apr 15, 2021
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  4. added local alevin modules

    @KevinMenden
    KevinMenden committed Apr 15, 2021
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  5. half-working alevin dsl2 version

    @KevinMenden
    KevinMenden committed Apr 15, 2021
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Commits on Apr 16, 2021

  1. more updates

    @KevinMenden
    KevinMenden committed Apr 16, 2021
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Commits on Apr 19, 2021

  1. added multiqc, get software versions

    @KevinMenden
    KevinMenden committed Apr 19, 2021
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  2. added workflow groovy class

    @KevinMenden
    KevinMenden committed Apr 19, 2021
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  3. working alevin version

    @KevinMenden
    KevinMenden committed Apr 19, 2021
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  4. removed 'type' parameter

    @KevinMenden
    KevinMenden committed Apr 19, 2021
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  5. added whitelist to salmon_alevin

    @KevinMenden
    KevinMenden committed Apr 19, 2021
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  6. added completion and utils classes

    @KevinMenden
    KevinMenden committed Apr 19, 2021
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  7. updated schema; started with star

    @KevinMenden
    KevinMenden committed Apr 19, 2021
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  8. working STARsolo pipeline

    @KevinMenden
    KevinMenden committed Apr 19, 2021
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  9. added multiqc to starsolo; fixed bug

    @KevinMenden
    KevinMenden committed Apr 19, 2021
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  10. Merge pull request #55 from KevinMenden/dev 

    DSL2 version with working alevin workflow
    @KevinMenden
    KevinMenden authored Apr 19, 2021
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Commits on Apr 20, 2021

  1. started with kb pipeline

    @KevinMenden
    KevinMenden committed Apr 20, 2021
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  2. working kallistobustools version

    @KevinMenden
    KevinMenden committed Apr 20, 2021
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Commits on Apr 21, 2021

  1. added function to format the protocol

    @KevinMenden
    KevinMenden committed Apr 21, 2021
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Commits on Apr 26, 2021

  1. working tests for DSL2

    @KevinMenden
    KevinMenden committed Apr 26, 2021
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  2. updated schema

    @KevinMenden
    KevinMenden committed Apr 26, 2021
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  3. updated NfcoreSchema

    @KevinMenden
    KevinMenden committed Apr 26, 2021
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  4. updated patterns

    @KevinMenden
    KevinMenden committed Apr 26, 2021
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  5. updated schema again

    @KevinMenden
    KevinMenden committed Apr 26, 2021
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  6. feat: remove social preview image to use GitHub OpenGraph

    @maxulysse
    maxulysse committed Apr 26, 2021
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  7. Merge pull request #57 from maxulysse/dev 

    Remove social preview image to use GitHub OpenGraph
    @ewels
    ewels authored Apr 26, 2021
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Commits on Apr 27, 2021

  1. Apply suggestions from code review 

    Co-authored-by: Gisela Gabernet <gisela.gabernet@gmail.com>
    @KevinMenden @ggabernet
    KevinMenden and ggabernet authored Apr 27, 2021
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  2. Update lib/Workflow.groovy 

    Co-authored-by: Gisela Gabernet <gisela.gabernet@gmail.com>
    @KevinMenden @ggabernet
    KevinMenden and ggabernet authored Apr 27, 2021
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  3. Merge pull request #56 from KevinMenden/dev 

    Added kallistobustools
    @KevinMenden
    KevinMenden authored Apr 27, 2021
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Commits on Apr 29, 2021

  1. added checks

    @KevinMenden
    KevinMenden committed Apr 29, 2021
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Commits on May 11, 2021

  1. Template update for nf-core/tools version 1.14

    @nf-core-bot
    nf-core-bot committed May 11, 2021
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Commits on Jun 18, 2021

  1. Update README.md 

    fixing the Introduction
    @medulka
    medulka authored Jun 18, 2021
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  2. Update README.md

    @medulka
    medulka authored Jun 18, 2021
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Commits on Jun 29, 2021

  1. Update README.md 

    Co-authored-by: Olga Botvinnik <olga.botvinnik@gmail.com>
    @medulka @olgabot
    medulka and olgabot authored Jun 29, 2021
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  2. Update README.md

    @medulka
    medulka authored Jun 29, 2021
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  3. Update README.md

    @medulka
    medulka authored Jun 29, 2021
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Commits on Jul 12, 2021

  1. updated with new modules filepaths

    @KevinMenden
    KevinMenden committed Jul 12, 2021
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Commits on Jul 13, 2021

  1. Template update for nf-core/tools version 2.0

    @KevinMenden
    KevinMenden committed Jul 13, 2021
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  2. Template update for nf-core/tools version 2.0.1

    @nf-core-bot
    nf-core-bot committed Jul 13, 2021
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Commits on Jul 27, 2021

  1. Template update for nf-core/tools version 2.1

    @nf-core-bot
    nf-core-bot committed Jul 27, 2021
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Commits on Oct 22, 2021

  1. Merge branch 'dsl2' of https://github.com/nf-core/scrnaseq into dsl2

    @ggabernet
    ggabernet committed Oct 22, 2021
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Commits on Oct 28, 2021

  1. Merge pull request #62 from KevinMenden/dev 

    Update to new file structure
    @ggabernet
    ggabernet authored Oct 28, 2021
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Commits on Oct 29, 2021

  1. Merge branch 'TEMPLATE' of https://github.com/nf-core/scrnaseq into m… 

    …erge-template-update
    @ggabernet
    ggabernet committed Oct 29, 2021
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  2. fix groovy function errors

    @ggabernet
    ggabernet committed Oct 29, 2021
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  3. update changelog

    @ggabernet
    ggabernet committed Oct 29, 2021
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  4. replace software for modules folder

    @ggabernet
    ggabernet committed Oct 29, 2021
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  5. update nextflow schema groovy

    @ggabernet
    ggabernet committed Oct 29, 2021
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  6. update nextflow schema

    @ggabernet
    ggabernet committed Oct 29, 2021
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  7. update nf-core module versions

    @ggabernet
    ggabernet committed Oct 29, 2021
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  8. bump version

    @ggabernet
    ggabernet committed Oct 29, 2021
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  9. fix mkdown lint

    @ggabernet
    ggabernet committed Oct 29, 2021
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  10. Merge branch 'dsl2' of https://github.com/nf-core/scrnaseq into merge… 

    …-template-update
    @ggabernet
    ggabernet committed Oct 29, 2021
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  11. fix editorconfig lint

    @ggabernet
    ggabernet committed Oct 29, 2021
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  12. fix gtf error

    @ggabernet
    ggabernet committed Oct 29, 2021
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  13. Merge pull request #74 from ggabernet/merge-template-update 

    Merge template update v2.1
    @ggabernet
    ggabernet authored Oct 29, 2021
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  14. Update modules/local/kallistobustools_count.nf 

    Co-authored-by: Edmund Miller <edmund.a.miller@protonmail.com>
    @ggabernet @edmundmiller
    ggabernet and edmundmiller authored Oct 29, 2021
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Commits on Nov 2, 2021

  1. Update README.md 

    Co-authored-by: Gregor Sturm <mail@gregor-sturm.de>
    @ggabernet @grst
    ggabernet and grst authored Nov 2, 2021
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Commits on Dec 14, 2021

  1. Template update for nf-core/tools version 2.2

    @nf-core-bot
    nf-core-bot committed Dec 14, 2021
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Commits on Dec 15, 2021

  1. Merge pull request #73 from nf-core/dsl2 

    DSL2 conversion
    @ggabernet
    ggabernet authored Dec 15, 2021
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Commits on Dec 30, 2021

  1. Fix kallistobus didn't run with multiple samples

    @grst
    grst committed Dec 30, 2021
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  2. Update changelog

    @grst
    grst committed Dec 30, 2021
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  3. Fix same thing for alevin

    @grst
    grst committed Dec 30, 2021
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  4. Fix same issue for starsolo

    @grst
    grst committed Dec 30, 2021
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  5. Fix alevinqc 

    The report filename was overwritten in case of multiple samples.
Also, due to an outdated container image, fonts were not
rendered properly in the plots within the report.
    @grst
    grst committed Dec 30, 2021
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Commits on Jan 3, 2022

  1. Merge pull request #77 from grst/fix-kallistobus 

    Fix kallistobus didn't run with multiple samples
    @apeltzer
    apeltzer authored Jan 3, 2022
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  2. Merge pull request #79 from grst/fix-alevinqc 

    Fix alevinqc
    @apeltzer
    apeltzer authored Jan 3, 2022
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  3. Merge branch 'dev' into nf-core-template-merge-2.2

    @grst
    grst committed Jan 3, 2022
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  4. nf-core modules update --all

    @grst
    grst committed Jan 3, 2022
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  5. Fix some nf-core lint

    @grst
    grst committed Jan 3, 2022
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Commits on Jan 4, 2022

  1. Temporarily re-add functions.nf for local modules

    @grst
    grst committed Jan 4, 2022
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  2. Update pipeline to work with new nf-core modules

    @grst
    grst committed Jan 4, 2022
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Commits on Jan 5, 2022

  1. Update modules config to use new syntax

    @grst
    grst committed Jan 5, 2022
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  2. Update local modules part 1

    @grst
    grst committed Jan 5, 2022
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  3. Update modules container directive

    @grst
    grst committed Jan 5, 2022
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  4. Remove addParams

    @grst
    grst committed Jan 5, 2022
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  5. Make process configuration conditional on aligner

    @grst
    grst committed Jan 5, 2022
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  6. Switch to cellranger modules from nf-core/modules

    @grst
    grst committed Jan 5, 2022
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  7. Update local modules to versions.yml syntax

    @grst
    grst committed Jan 5, 2022
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  8. Fix channel names due to updated modules

    @grst
    grst committed Jan 5, 2022
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  9. Fix eclint

    @grst
    grst committed Jan 5, 2022
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Commits on Jan 7, 2022

  1. Merge branch 'dev' into master

    @grst
    grst authored Jan 7, 2022
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Commits on Jan 12, 2022

  1. Add Zenodo DOI

    @apeltzer
    apeltzer committed Jan 12, 2022
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  2. Remove todos for samplesheet py

    @apeltzer
    apeltzer committed Jan 12, 2022
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  3. Drop it like its hot

    @apeltzer
    apeltzer committed Jan 12, 2022
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  4. Only lint warnings left

    @apeltzer
    apeltzer committed Jan 12, 2022
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  5. Merge pull request #76 from nf-core/nf-core-template-merge-2.2 

    All green - lets go!
    @apeltzer
    apeltzer authored Jan 12, 2022
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Commits on Jan 17, 2022

  1. WIP refactor workflows into subworkflows 

    There are already some redunancies between the different
"workflows" (salmon/alevin/star). This will be getting
worse as additional features downstream of the quantification
are getting implemented (e.g. conversion to AnnData, ambient
RNA filtering etc.)

This is the beginning of a series of commits that will
turn the workflows into subworkflows:
 - [ ] Streamline parameter validation and move to main workflow
 - [ ] Make the different alignment workflow subworkflows that are
       independent of `params` and get all input values via `take` instead
 - [ ] Make cellranger subworkflow available
    @grst
    grst committed Jan 17, 2022
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Commits on Jan 20, 2022

  1. Kallisto works again

    @grst
    grst committed Jan 20, 2022
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Commits on Jan 22, 2022

  1. Finish refactor salmon

    @grst
    grst committed Jan 22, 2022
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  2. Finish refactoring starsolo

    @grst
    grst committed Jan 22, 2022
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  3. Fix eclint

    @grst
    grst committed Jan 22, 2022
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Commits on Jan 26, 2022

  1. Unify multiqc

    @grst
    grst committed Jan 26, 2022
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  2. Merge remote-tracking branch 'origin/dev' into medulka/master

    @grst
    grst committed Jan 26, 2022
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  3. Remove incorrect use of params instead of input channels

    @grst
    grst committed Jan 26, 2022
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  4. Merge pull request #59 from medulka/master 

    Update README.md
    @grst
    grst authored Jan 26, 2022
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  5. WIP cellranger workflow

    @grst
    grst committed Jan 26, 2022
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Commits on Jan 31, 2022

  1. Enable cellranger count

    @grst
    grst committed Jan 31, 2022
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  2. Make kb_workflow an enum

    @grst
    grst committed Jan 31, 2022
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  3. Merge pull request #87 from grst/cellranger 

    Refactor workflows into subworkflows
    @grst
    grst authored Jan 31, 2022
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Commits on Feb 21, 2022

  1. Fix cellranger input path

    @grst
    grst committed Feb 21, 2022
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Commits on Mar 15, 2022

  1. Template update for nf-core/tools version 2.3

    @nf-core-bot
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Commits on Mar 23, 2022

  1. Template update for nf-core/tools version 2.3.1

    @nf-core-bot
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Commits on Mar 24, 2022

  1. Template update for nf-core/tools version 2.3.2

    @nf-core-bot
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Commits on Mar 31, 2022

  1. transcriptome_fasta -> transcript_fasta

    @leipzig
    leipzig committed Mar 31, 2022
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Commits on May 16, 2022

  1. Template update for nf-core/tools version 2.4

    @nf-core-bot
    nf-core-bot committed May 16, 2022
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Commits on May 23, 2022

  1. Update check_samplesheet.py 

    handling existence of replicates
    @fmalmeida
    fmalmeida committed May 23, 2022
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  2. Update check_samplesheet.py 

    replicates are appended together
    @fmalmeida
    fmalmeida committed May 23, 2022
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  3. input check has a new parameter 

    Input check has a new parameter that allows the merging ("appending") of reads in the python dictionary only when cellranger is used ... as this problem we were facing only when using it.
    @fmalmeida
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Commits on May 24, 2022

  1. adding test_cellranger profile

    @fmalmeida
    fmalmeida committed May 24, 2022
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  2. fixing schema for linting

    @fmalmeida
    fmalmeida committed May 24, 2022
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  3. fixed unchanged templates with lint tool

    @fmalmeida
    fmalmeida committed May 24, 2022
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Commits on May 27, 2022

  1. Update ci.yml 

    changed order to ensure cellranger is tried
    @fmalmeida
    fmalmeida committed May 27, 2022
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Commits on May 30, 2022

  1. updating cellranger module to nf-core latest

    @fmalmeida
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  2. Update check_samplesheet.py 

    reverted script to allow the use of techinal replicates for all aligners

if a sample is defined multiple times, it will only append the file to the dictionary instead of raising an error
    @fmalmeida
    fmalmeida committed May 30, 2022
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  3. Update kallistobustools_count.nf 

    instead of using only the first elements of the input array, it now joins the filenames in a single string usig whitespaces.

This would make it possible to use it when more replicates are available

We may want to add a checking so it complains when not using paired end data.
    @fmalmeida
    fmalmeida committed May 30, 2022
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  4. Update scrnaseq.nf 

    added a comment explaining why this channel mapping is still necessary
    @fmalmeida
    fmalmeida committed May 30, 2022
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Commits on May 31, 2022

  1. added parsing loop to handle replicates

    @fmalmeida
    fmalmeida committed May 31, 2022
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  2. added indentation to file

    @fmalmeida
    fmalmeida committed May 31, 2022
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  3. fixed cellranger test calling

    @fmalmeida
    fmalmeida committed May 31, 2022
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  4. Update check_samplesheet.py 

    add changed code line as backup
    @fmalmeida
    fmalmeida committed May 31, 2022
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  5. updating cellranger module mkgtf to same version as count

    @fmalmeida
    fmalmeida committed May 31, 2022
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  6. Delete .markdownlint.yml 

    nf-core lint wants it deleted
    @fmalmeida
    fmalmeida committed May 31, 2022
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  7. updated to nf-core latest to have same docker image

    @fmalmeida
    fmalmeida committed May 31, 2022
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  8. Create .prettierrc.yml

    @fmalmeida
    fmalmeida committed May 31, 2022
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  9. Update .prettierrc.yml 

    fixed with nf-core lint
    @fmalmeida
    fmalmeida committed May 31, 2022
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  10. Update nextflow.config 

    fixed with nf-core lint
    @fmalmeida
    fmalmeida committed May 31, 2022
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Commits on Jun 2, 2022

  1. diminishing complexity on input channel generation

    @fmalmeida
    fmalmeida committed Jun 2, 2022
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  2. Update align_cellranger.nf 

    flattens reads array as it is expected my the module
    @fmalmeida
    fmalmeida committed Jun 2, 2022
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  3. fixing and commenting channel generation

    @fmalmeida
    fmalmeida committed Jun 2, 2022
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  4. changing bad for loop

    @fmalmeida
    fmalmeida committed Jun 2, 2022
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  5. Update align_cellranger.nf 

    removing redudancy spotted
    @fmalmeida
    fmalmeida committed Jun 2, 2022
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Commits on Jun 3, 2022

  1. executed prettier on files

    @fmalmeida
    fmalmeida committed Jun 3, 2022
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  2. Merge branch 'dev' into cellranger2

    @fmalmeida
    fmalmeida authored Jun 3, 2022
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  3. ran prettier after solving conflict

    @fmalmeida
    fmalmeida committed Jun 3, 2022
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  4. Revert "executed prettier on files" as it broke linting 

    This reverts commit 5c2a21a.
    @fmalmeida
    fmalmeida committed Jun 3, 2022
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Commits on Jun 7, 2022

  1. added comment about input reads on relevant "local" modules

    @fmalmeida
    fmalmeida committed Jun 7, 2022
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  2. Merge pull request #90 from grst/cellranger2 

    Integrate cellranger workflow
    @apeltzer
    apeltzer authored Jun 7, 2022
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  3. Merge branch 'dev' into nf-core-template-merge-2.4

    @fmalmeida
    fmalmeida committed Jun 7, 2022
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Commits on Jun 8, 2022

  1. params.txp2gene was wrongly set

    @fmalmeida
    fmalmeida committed Jun 8, 2022
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  2. Update nextflow_schema.json

    @fmalmeida
    fmalmeida committed Jun 8, 2022
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  3. fixed outdir default

    @fmalmeida
    fmalmeida committed Jun 8, 2022
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  4. Update check_samplesheet.py

    @fmalmeida
    fmalmeida committed Jun 8, 2022
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  5. keep template command line definition

    @fmalmeida
    fmalmeida committed Jun 8, 2022
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  6. Merge pull request #101 from nf-core/nf-core-template-merge-2.4 

    Important! Template update for nf-core/tools v2.4
    @apeltzer
    apeltzer authored Jun 8, 2022
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  7. Update README.md 

    Add more details
    @apeltzer
    apeltzer authored Jun 8, 2022
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  8. Fix lint & update all modules to latest version

    @apeltzer
    apeltzer committed Jun 8, 2022
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  9. Merge pull request #102 from nf-core/fix-lint 

    Fix Lint & Update latest modules
    @apeltzer
    apeltzer authored Jun 8, 2022
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  10. Update test_full.config 

    Started working on full-test profile, needs proper human reference + gtf now though
    @apeltzer
    apeltzer authored Jun 8, 2022
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  11. Update test_full.config 

    That should do it
    @apeltzer
    apeltzer authored Jun 8, 2022
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Commits on Jun 9, 2022

  1. adding missing example samplesheet

    @fmalmeida
    fmalmeida committed Jun 9, 2022
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  2. adding cellranger information

    @fmalmeida
    fmalmeida committed Jun 9, 2022
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  3. Update README.md

    @fmalmeida
    fmalmeida committed Jun 9, 2022
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  4. update common command line

    @fmalmeida
    fmalmeida committed Jun 9, 2022
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  5. removing duplicate entry and unused test profiles

    @fmalmeida
    fmalmeida committed Jun 9, 2022
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  6. fixing example that was incorrect

    @fmalmeida
    fmalmeida committed Jun 9, 2022
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  7. adding aligner options to docs

    @fmalmeida
    fmalmeida committed Jun 9, 2022
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  8. rebuild json with nf-core schema build

    @fmalmeida
    fmalmeida committed Jun 9, 2022
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  9. Update conf/test_full.config 

    Co-authored-by: Gisela Gabernet <gisela.gabernet@gmail.com>
    @apeltzer @ggabernet
    apeltzer and ggabernet authored Jun 9, 2022
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  10. Update test_full.config

    @apeltzer
    apeltzer authored Jun 9, 2022
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  11. Merge pull request #103 from nf-core/full-test 

    Add AWS Full Size Tests
    @apeltzer
    apeltzer authored Jun 9, 2022
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  12. Apply suggestions from code review

    @apeltzer
    apeltzer authored Jun 9, 2022
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Commits on Jun 10, 2022

  1. Fix prettier

    @apeltzer
    apeltzer committed Jun 10, 2022
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  2. Merge pull request #104 from nf-core/update-docs 

    Updating docs
    @apeltzer
    apeltzer authored Jun 10, 2022
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  3. Fix whitespace

    @apeltzer
    apeltzer committed Jun 10, 2022
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  4. Merge pull request #97 from truwl/dev 

    transcriptome_fasta -> transcript_fasta
    @apeltzer
    apeltzer authored Jun 10, 2022
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  5. Update and fix last todos / lint erros and update multiqc module

    @apeltzer
    apeltzer committed Jun 10, 2022
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  6. fix publishdir

    @ggabernet
    ggabernet committed Jun 10, 2022
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  7. Fix ec

    @apeltzer
    apeltzer committed Jun 10, 2022
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  8. Version 2.0.0

    @apeltzer
    apeltzer committed Jun 10, 2022
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  9. run all aligners on aws

    @ggabernet
    ggabernet committed Jun 10, 2022
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  10. Fixed tests, now testing all

    @apeltzer
    apeltzer committed Jun 10, 2022
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  11. run all aligners on aws

    @ggabernet
    ggabernet committed Jun 10, 2022
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  12. fix publishdir

    @ggabernet
    ggabernet committed Jun 10, 2022
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  13. Merge branch 'dev' into dev

    @apeltzer
    apeltzer authored Jun 10, 2022
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  14. Merge pull request #106 from ggabernet/dev 

    AWS test all profiles and fix publishdir
    @apeltzer
    apeltzer authored Jun 10, 2022
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  15. Update to CellRanger 7.0.0!

    @apeltzer
    apeltzer committed Jun 10, 2022
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  16. fix full test

    @ggabernet
    ggabernet committed Jun 10, 2022
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  17. Merge pull request #107 from ggabernet/dev 

    fix full test
    @apeltzer
    apeltzer authored Jun 10, 2022
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  18. add default to outdir as it was in schema 

    `params.outdir` had a default in schema but not in `nextflow.config`, thus was raising error when user did not specify it.
    @fmalmeida
    fmalmeida authored Jun 10, 2022
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  19. back to null

    @fmalmeida
    fmalmeida authored Jun 10, 2022
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  20. remove outdir default line

    @fmalmeida
    fmalmeida authored Jun 10, 2022
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  21. Update test_full.config 

    Fix tests with 10X references
    @apeltzer
    apeltzer authored Jun 10, 2022
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  22. Merge pull request #108 from nf-core/fmalmeida-outdir-default 

    add default to outdir as it was in schema
    @apeltzer
    apeltzer authored Jun 10, 2022
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  23. Merge pull request #109 from nf-core/fix-full-tests 

    Fixes full tests with 10x references
    @apeltzer
    apeltzer authored Jun 10, 2022
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  24. Update test_full.config 

    Hopefully a final fix now 👍🏻 🤠 merging!
    @apeltzer
    apeltzer authored Jun 10, 2022
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  25. Update test_full.config 

    Use filtered gtf
    @apeltzer
    apeltzer authored Jun 10, 2022
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Commits on Jun 16, 2022

  1. Update nextflow.config 

    removing repeated definitions of parameters
    @fmalmeida
    fmalmeida committed Jun 16, 2022
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  2. update CI and full size test

    @ggabernet
    ggabernet committed Jun 16, 2022
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  3. Merge pull request #112 from ggabernet/dev 

    update CI and full size test
    @ggabernet
    ggabernet authored Jun 16, 2022
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  4. Merge pull request #111 from nf-core/removing-repeatitions 

    Update nextflow.config
    @apeltzer
    apeltzer authored Jun 16, 2022
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Commits on Jun 17, 2022

  1. Fix for #60

    @apeltzer
    apeltzer committed Jun 17, 2022
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  2. Merge pull request #113 from nf-core/fix-for-60 

    Fix for STAR chemistry issue #60
    @apeltzer
    apeltzer authored Jun 17, 2022
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