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1. Commits on Oct 22, 2018

   • added option --output_dir | -O to both TransDecoder.LongOrfs and TransDecoder.Predict, as per request, so users can point to specific output directories rather than relying on the default ( basena…

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2. Commits on Oct 17, 2018

   • Release 5.4.0

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3. Commits on Oct 16, 2018

   • prep for release 5.4.0

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   • updated tests to ensure logic

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   • adding tests for run modes

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   • less verbose

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   • bugfix, should be considering CDS span and not gene span when looking for overlapping orfs

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4. Commits on Aug 26, 2018

   • removed mention of --train

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5. Commits on Jun 7, 2018

   • allow zero for asmbl_id

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6. Commits on May 11, 2018

   • back to devel mode

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   • cleanup

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   • pullmerge

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   • more cleanup

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   • Delete README

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   • Update README.md

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   • better cleanup in sample area

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   • release v5.3.0

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   • removed DB_File

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   • removed DB_File requirement

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   • removing DB_File requirement

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   • removing DB_File requirement

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   • remove DB_File

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   • removing DB_File requirement

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7. Commits on Apr 27, 2018

   • echo done

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   • support gene-gtf format for final outputs

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8. Commits on Apr 21, 2018

   • back to devel

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   • release v5.2 Apri 21

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   • cleanup

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9. Commits on Apr 20, 2018

   • set workdir after gunzipping transcripts

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10. Commits on Apr 19, 2018

    • ensure full path for workdir being set

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    • ensure full path for workdir being set

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    • revised pipeliner and checkpointing system

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    • upgrade pipeliner

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    • update

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11. Commits on Apr 18, 2018

    • Release v5.2.0

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