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Commits on Feb 5, 2024

• Merge pull request #132 from kbipinkumar/patch-1

  evolarjun

  authoredFeb 5, 2024
  a826b72

• Merge pull request #137 from ncbi/dev

  evolarjun

  authoredFeb 5, 2024
  53290b6

Commits on Feb 1, 2024

• Temporary test updates for test_database_update.sh

  evolarjun

  committedFeb 1, 2024
  a664862

• ALLELEP = EXACTP for alleles; exact matches (with hanging tailes) are preferred

  

  Vyacheslav Brover

  committedFeb 1, 2024
  9755d08

• PD-4872 hanging tails of target protein are allowed for EXACTP matches, but ALLELEP requires EXACTP with no hanging tails

  

  Vyacheslav Brover

  committedFeb 1, 2024
  c4ff2c6

Commits on Jan 29, 2024

• PD-4856 BlastAlignment::BlastRule's are valid iff not fromHmm and not inFam(); memory leaks in amr_report.cpp; replacing getFam() by getMatchFam() in amr_report.cpp

  

  Vyacheslav Brover

  committedJan 29, 2024
  8074db5

Commits on Jan 19, 2024

• PD-4856 Allow multiple Blast Rules for the same protein

  

  Vyacheslav Brover

  committedJan 19, 2024
  5a38c31

Commits on Jan 17, 2024

• Add triggers for compilation tests on pull request

  evolarjun

  committedJan 17, 2024
  1493251

Commits on Dec 21, 2023

• PD-4843 --mutation_all should report only point mutations

  

  Vyacheslav Brover

  committedDec 21, 2023
  8308b11

Commits on Dec 18, 2023

• PD-4838 adding '*' to the ends of reference proteins

  

  Vyacheslav Brover

  committedDec 18, 2023
  99cb407

Commits on Oct 18, 2023

• Makefile: add linker flags for binaries

  kbipinkumar

  authoredOct 18, 2023
  c96678c

Commits on Oct 17, 2023

• Merge pull request #131 from kbipinkumar/patch-1

  evolarjun

  authoredOct 17, 2023
  0de9226

• Makefile: add $(DESTDIR) variable to use GNU make's staged Install Process

  kbipinkumar

  authoredOct 17, 2023
  7dbef64

Commits on Oct 16, 2023

• Missed a spot. Fix --print_node in binary tests

  evolarjun

  committedOct 16, 2023
  73d355b

• Fix github tests with --print_node option

  evolarjun

  committedOct 16, 2023
  0f11017

• Add hierarchy_node to binary github tests

  evolarjun

  committedOct 16, 2023
  eb7ec06

• Merge branch 'dev'

  evolarjun

  committedOct 16, 2023
  01dbead

• PD-4772 Remove prodigal GFF format from AMRFinderPlus

  

  Vyacheslav Brover

  committedOct 16, 2023
  c0f7904

• Further test changes for version 3.11.24

  evolarjun

  committedOct 16, 2023
  bf87fe5

• Added --print_node flag to tests

  evolarjun

  committedOct 16, 2023
  f3f5e06

Commits on Oct 13, 2023

• PD-4771 Revert removing '*' from Prodigal output to ensure ALLELEP and EXACTP matches

  

  Vyacheslav Brover

  committedOct 13, 2023
  2261ece

• PD-4769 --print_node prints the hierarchy node replaced by its parent for non-exact allele matches

  

  Vyacheslav Brover

  committedOct 13, 2023
  a1b6bd0

Commits on Oct 6, 2023

• PD-4764 Remove '*' from Prodigal output to ensure ALLELEP and EXCATP matches

  

  Vyacheslav Brover

  committedOct 6, 2023
  367d1ea

• Updated test data for release 2023-09-26.1

  evolarjun

  committedOct 6, 2023
  181bdfa

Commits on Oct 5, 2023

• PD-4754 prodigal; PD-4761 proteins with >= 20 Xs from the input protein FASTA file are removed

  

  Vyacheslav Brover

  committedOct 5, 2023
  ad4a74b

Commits on Oct 2, 2023

• PD-4755 calling fusion2geneSymbols() for a mutation protein

  

  Vyacheslav Brover

  committedOct 2, 2023
  ec148fc

Commits on Sep 27, 2023

• Updated test data for DB release 2023-09-26.1

  evolarjun

  committedSep 27, 2023
  185a69f

Commits on Sep 6, 2023

• PD-4722 bug: calling fusion2geneSymbols() for a mutation protein; color codes are printed only when output is to screen

  

  Vyacheslav Brover

  committedSep 6, 2023
  ccf119c

Commits on Aug 9, 2023

• PD-4698 if a pseudogene is overlapped by a different gene on the length >= 20 aa with the same gene symbol then the pseudogene is not reported

  

  Vyacheslav Brover

  committedAug 9, 2023
  76f1c26

• PD-4698 if a pseudogene is overlapped by a different gene on the length >= 20 aa then the pseudogene is not reported

  

  Vyacheslav Brover

  committedAug 9, 2023
  c1cf90c

Commits on Aug 4, 2023

• PD-4706 protein match overrides a nucleotide match for point mutations

  

  Vyacheslav Brover

  committedAug 4, 2023
  e352ffc

Commits on Jul 19, 2023

• Improved binary_distribution file creation

  evolarjun

  committedJul 19, 2023
  c6859b0

• PD-4687 distinct overlapping hits are not reported separately for protein targets for the same alleles or gene symbols

  

  Vyacheslav Brover

  committedJul 19, 2023
  d61f728

Commits on Jul 18, 2023

• Merge branch 'master' into dev

  evolarjun

  committedJul 18, 2023
  80beec7

• 2nd try update test data release 2023-07-13.2

  evolarjun

  committedJul 18, 2023
  2844aab

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