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[MRG] Reapply 3.5.x deprecations in support of 4.0 #1323

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wants to merge 12 commits into from
Closed

[MRG] Reapply 3.5.x deprecations in support of 4.0 #1323

wants to merge 12 commits into from

Commits on Feb 7, 2021

  1. add deprecation for --input-is-10x

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    ctb committed Feb 7, 2021
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  2. add warnings about new lca summarize behavior

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    ctb committed Feb 7, 2021
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  3. add warning for new behavior of merge

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    ctb committed Feb 7, 2021
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Commits on Feb 12, 2021

  1. upgrade bam2fasta

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    ctb committed Feb 12, 2021
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  2. Revert "upgrade bam2fasta" 

    This reverts commit 59b6be5.
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    ctb committed Feb 12, 2021
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  3. Revert "add warning for new behavior of merge" 

    This reverts commit a12c695.
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  4. Revert "add warnings about new lca summarize behavior" 

    This reverts commit 2f3e8fb.
    @ctb
    ctb committed Feb 12, 2021
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  5. Revert "add deprecation for --input-is-10x" 

    This reverts commit fd0918e.
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    ctb committed Feb 12, 2021
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  6. Revert "add deprecation warning for TarStorage (#1165)" 

    This reverts commit 02d046d.
    @ctb
    ctb committed Feb 12, 2021
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  7. updates and deprecations for 3.5.1 in support of 4.0

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    ctb committed Feb 12, 2021
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Commits on Feb 13, 2021

  1. Revert "Revert "add deprecation warning for TarStorage (#1165)"" 

    This reverts commit 743cd94.
    @ctb
    ctb committed Feb 13, 2021
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  2. Merge branch 'revert_bad_merge' into reapply_deprecate_35

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