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add reconstructR workflow #504

Merged
merged 18 commits into from
Dec 19, 2023
Merged

add reconstructR workflow #504

merged 18 commits into from
Dec 19, 2023

Commits on Dec 11, 2023

  1. update WDL syntax; add reconstructr task

    @dpark01
    dpark01 committed Dec 11, 2023
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  2. correct the R invocation

    @dpark01
    dpark01 committed Dec 11, 2023
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Commits on Dec 12, 2023

  1. update with scripts to auto-decompress if necessary

    @dpark01
    dpark01 committed Dec 12, 2023
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  2. initial workflow for reconstructr

    @dpark01
    dpark01 committed Dec 12, 2023
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  3. typo

    @dpark01
    dpark01 committed Dec 12, 2023
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  4. oops mafft needs one file

    @dpark01
    dpark01 committed Dec 12, 2023
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Commits on Dec 15, 2023

  1. final bits of reconstruct_from_alignments workflow

    @dpark01
    dpark01 committed Dec 15, 2023
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  2. Merge branch 'master' into reconstructr

    @dpark01
    dpark01 committed Dec 15, 2023
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Commits on Dec 18, 2023

  1. change indent of heredoc inline python block

    @dpark01
    dpark01 committed Dec 18, 2023
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  2. fix typo syntax

    @dpark01
    dpark01 committed Dec 18, 2023
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  3. big docker image

    @dpark01
    dpark01 committed Dec 18, 2023
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  4. fix

    @dpark01
    dpark01 committed Dec 18, 2023
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  5. enforce harmonized file and sample names

    @dpark01
    dpark01 committed Dec 18, 2023
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  6. allow override of sample name

    @dpark01
    dpark01 committed Dec 18, 2023
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  7. remove float factor

    @dpark01
    dpark01 committed Dec 18, 2023
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  8. fix

    @dpark01
    dpark01 committed Dec 18, 2023
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  9. fix quoting

    @dpark01
    dpark01 committed Dec 18, 2023
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Commits on Dec 19, 2023

  1. add telemetry to reconstructr

    @dpark01
    dpark01 committed Dec 19, 2023
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