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Commits on Jul 19, 2018

• added clipL, clipR soft-clipping values to GBamRecord

  gpertea

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Commits on Jul 13, 2018

• removed unnecessary echo command in Makefile

  gpertea

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  079180e

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• more MacOS gdb fixes

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  7b27c4a

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Commits on Jul 6, 2018

• a few changes for the MacOS build

  gpertea

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  32ff6db

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Commits on Jun 26, 2018

• Makefile adjustments (for #185)

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Commits on Jun 6, 2018

• fix minor comment typo

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  55a97e0

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Commits on Apr 9, 2018

• safer GTF vs GFF3 recognition; GStr fixes

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Commits on Feb 25, 2018

• Makefile warn confuses eclipse CDT builder

  gpertea

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  e5d850c

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Commits on Feb 21, 2018

• update python version requirement (2.7)

  gpertea

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Commits on Feb 20, 2018

• minor Makefile edit

  gpertea

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  1b1ea00

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• adjusted Makefile; more -v logging info per bundle

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  a736bd7

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Commits on Feb 15, 2018

• new version tag due to horrible GStr bug

  gpertea

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  2584c14

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• fix terrible typo in GStr::appendmem()

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  7077890

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Commits on Feb 2, 2018

• bump version to 1.3.4beta due to more GFF parsing changes

  gpertea

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  173f0a7

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• added GffReader::gene2exon, not used by stringtie

  gpertea

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  783149e

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• a few more minor performance tweaks

  gpertea

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  7578030

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• more GTF/GFF parsing fixes and workarounds

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  b3c5cc7

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Commits on Feb 1, 2018

• allow BED4 format; include explicit start/stop codons in CDS

  gpertea

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  99b19bc

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Commits on Dec 14, 2017

• removed unused function

  gpertea

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  eea2f54

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• a couple of comments added about the consumer-producer model employed

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Commits on Oct 26, 2017

• more stringent recognition of transcripts (only exon-based entities are loaded)

  gpertea

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  ecd2e7d

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Commits on Oct 25, 2017

• sync gclib updates

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  6ea88d3

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• updated prepDE with some usability changes

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Commits on Aug 25, 2017

• enforce signed char (issue #138)

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Commits on Jul 12, 2017

• Merge pull request #128 from nsoranzo/patch-1

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• Merge pull request #133 from razsultana/patch-1

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Commits on Jul 8, 2017

• Update README.md

  razsultana

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  ef98b3f

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Commits on Jun 1, 2017

• Fix default values for 2 merge options

  nsoranzo

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  2ba0f4c

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Commits on Apr 6, 2017

• fixed unnecessary error when gene_id is missing in GTF

  gpertea

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Commits on Mar 27, 2017

• updated prep_*.sh files

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  2678e4e

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• patch release v1.3.3b

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  fd69cb6

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Commits on Mar 26, 2017

• fix merge of transcripts on opposite strands (issues #105, #100)

  gpertea

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  90fc13f

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• fixed glitch that allowed duplicate GFF attributes

  gpertea

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  f556e32

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• redesigned GTF parsing to fix GENCODE v20- regression

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  0731d0a

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Commits on Feb 15, 2017

• v1.3.3: fixed TPM and coverage calculation for -G

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