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Updates to adapt pipeline to new template (This also include PR #142 Implementation of IsoformSwitchAnalyzeR) #160

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Updates to adapt pipeline to new template (This also include PR #142 Implementation of IsoformSwitchAnalyzeR) #160

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Commits on Jun 4, 2024

  1. Add IsoformSwitchAnalyzeR to pipeline

    @jesseangelis
    jesseangelis committed Jun 4, 2024
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  2. Update json files and and config

    @jesseangelis
    jesseangelis committed Jun 4, 2024
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  3. Add IsoformSwitchAnalyzeR test

    @jesseangelis
    jesseangelis committed Jun 4, 2024
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  4. Update documentation

    @jesseangelis
    jesseangelis committed Jun 4, 2024
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  5. Resolve commit conflicts

    @jesseangelis
    jesseangelis committed Jun 4, 2024
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  6. Resolve missing output if no switches were found

    @jesseangelis
    jesseangelis committed Jun 4, 2024
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  7. Update Credits

    @jesseangelis
    jesseangelis committed Jun 4, 2024
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  8. Update Docs

    @jesseangelis
    jesseangelis committed Jun 4, 2024
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Commits on Jun 5, 2024

  1. Format using prettier

    @jesseangelis
    jesseangelis committed Jun 5, 2024
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  2. Update output documentation

    @jesseangelis
    jesseangelis committed Jun 5, 2024
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  3. Format output documentation

    @jesseangelis
    jesseangelis committed Jun 5, 2024
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Commits on Jun 6, 2024

  1. Update dIF definition

    @jesseangelis
    jesseangelis committed Jun 6, 2024
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Commits on Oct 26, 2024

  1. Update CHANGELOG.md

    @lathikaa
    lathikaa authored Oct 26, 2024
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  2. Update multiqc_config.yml

    @lathikaa
    lathikaa authored Oct 26, 2024
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  3. Update README.md

    @lathikaa
    lathikaa authored Oct 26, 2024
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  4. Update output.md

    @lathikaa
    lathikaa authored Oct 26, 2024
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Commits on Oct 28, 2024

  1. Update nextflow_schema.json

    @lathikaa
    lathikaa authored Oct 28, 2024
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  2. Update nextflow_schema.json

    @lathikaa
    lathikaa authored Oct 28, 2024
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  3. Delete lib directory to fix linting issues

    @lathikaa
    lathikaa authored Oct 28, 2024
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  4. Revert "Delete lib directory to fix linting issues" 

    This reverts commit f789fa8.
    @lathikaa
    lathikaa committed Oct 28, 2024
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Commits on Oct 31, 2024

  1. Updates to migrate from nf-validation to nf-schema

    @lathikaa
    lathikaa committed Oct 31, 2024
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  2. Updated schema to add isoformanalyzer

    @lathikaa
    lathikaa committed Oct 31, 2024
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  3. Updated the module to use the version with mem removed

    @lathikaa
    lathikaa committed Oct 31, 2024
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  4. Add files via upload

    @lathikaa
    lathikaa authored Oct 31, 2024
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  5. Updated to remove max_memory, max_cpus, max_time and replace with pro… 

    …cess resourceLimits
    @lathikaa
    lathikaa committed Oct 31, 2024
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  6. Updated for nf-core template version 3.0.2

    @lathikaa
    lathikaa committed Oct 31, 2024
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  7. Updated for nf-core template version 3.0.2

    @lathikaa
    lathikaa committed Oct 31, 2024
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  8. Updated for nf-core template version 3.0.2

    @lathikaa
    lathikaa committed Oct 31, 2024
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  9. Updated for nf-core template version 3.0.2

    @lathikaa
    lathikaa committed Oct 31, 2024
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  10. Updated for linting

    @lathikaa
    lathikaa committed Oct 31, 2024
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Commits on Nov 1, 2024

  1. Updated to add all test config except isoformswitchanalyzer due to sa… 

    …mple size and run time
    @lathikaa
    lathikaa committed Nov 1, 2024
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  2. Updated to change the version to address linting issues

    @lathikaa
    lathikaa committed Nov 1, 2024
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  3. Updated to address linting error and template version

    @lathikaa
    lathikaa committed Nov 1, 2024
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Commits on Nov 3, 2024

  1. Updated to remove lib folder and add utils subworkflows.

    @lathikaa
    lathikaa committed Nov 3, 2024
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  2. Updated to disable all config except test

    @lathikaa
    lathikaa committed Nov 3, 2024
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  3. Updated to resolve lint issue for image not matching the template

    @lathikaa
    lathikaa committed Nov 3, 2024
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  4. Updated directly from nf-core-template-merge-3.0.2 branch to resolve … 

    …lint issues
    @lathikaa
    lathikaa committed Nov 3, 2024
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  5. Add files via upload

    @lathikaa
    lathikaa authored Nov 3, 2024
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Commits on Nov 4, 2024

  1. Updated to set isoformanalyzer to false in other config files and add… 

    … resourceLimits
    @lathikaa
    lathikaa committed Nov 4, 2024
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  2. Updated to fix syntax error

    @lathikaa
    lathikaa committed Nov 4, 2024
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