clulab/reach

Issues

• trying to integrate bionlp processors from reach in odinson

  #802 opened a year ago by Crispae
  5

• nxmlreader error

  #800 opened a year ago by HaomiaoLuoLlanio
  14

• Docker build issue

  #799 opened a year ago by mjamei
  1

• sbt compile

  #796 opened a year ago by HaomiaoLuoLlanio
  11

• Compiler warnings

  #797 opened a year ago by kwalcock
  1

• BioRules visualizer locally

  #795 opened a year ago by bgyori
  14

• Mentions with duplicate IDs are removed upon deserialization

  #794 opened a year ago by kwalcock
  2

• Reach crashes on input of large nxml files with a stack overflow

  #792 opened a year ago by kwalcock
  0

• Long antecedent chains will blow the stack

  #791 opened a year ago by kwalcock
  4

• RunReachCLI gets stuck with specific nxml files

  #783 opened 2 years ago by guerrerosimonl
  6

• Failing test is not actually tested

  #784 opened a year ago by kwalcock
  1

• Large files break serial-json output

  #790 opened a year ago by kwalcock
  0

• Mentions should be sorted before output

  #787 opened a year ago by kwalcock
  0

• Triggers aren't converted to Bio- or Coref-Mentions and don't survive serialization

  #785 opened a year ago by kwalcock
  2

• BioNLPProcessor.annotate fails when withRuleNER is set to false

  #781 opened 2 years ago by kwalcock
  1

• Let BioNLPTokenizerPostProcessor mutant detection match Reach rules #49

  #782 opened 2 years ago by kwalcock
  0

• Why is testing done with a script?

  #779 opened 2 years ago by kwalcock
  2

• Error installing REACH with sbt.

  #774 opened 2 years ago by Crispae
  12

• Installation Error When Attempting to make REACH Jar

  #773 opened 2 years ago by compbiolover
  3

• Wrong field in PubmedAbstractIndexer

  #771 opened 2 years ago by kwalcock
  1

• API key for Elsevier

  #765 opened 2 years ago by kingfish777
  2

• Differences in processing between Arizona/Odinweb and local installation

  #766 opened 3 years ago by zebulon2
  2

• Problem with resource files in fat jar

  #759 opened 3 years ago by bgyori
  6

• Difficulty installing reach through sbt

  #758 opened 3 years ago by djinnome
  16

• Remove duplicate entries from Bioresources

  #746 opened 3 years ago by enoriega
  7

• bioresources should be standard text files, version controlled, directly readable, etc.

  #743 opened 3 years ago by kwalcock
  5

• Possible infinite loop in serial-json output

  #736 opened 4 years ago by kwalcock
  4

• Update Wiki with latest updates

  #731 opened 4 years ago by enoriega
  2

• Multiple problems with the indexcard output format

  #723 opened 4 years ago by enoriega
  15

• Merge bioresources into REACH

  #730 opened 4 years ago by enoriega
  9

• UAZ IDs could be more consistent

  #725 opened 4 years ago by kwalcock
  2

• AzFailsafeKBML does not seem to be threadsafe

  #732 opened 4 years ago by kwalcock
  2

• cannot run javac

  #729 opened 4 years ago by sateeshperi
  3

• [error] (run-main-0) java.lang.ClassNotFoundException: org.clulab.processors.server.ProcessorServer

  #714 opened 4 years ago by sateeshperi
  2

• Entity boundary issue related to sites

  #722 opened 4 years ago by bgyori
  22

• README needs to be updated

  #712 opened 4 years ago by kwalcock
  1

• keywords for frailty

  #715 opened 4 years ago by kwalcock
  16

• With the Arizona and CMU formats enabled, reach drops the ball

  #716 opened 4 years ago by kwalcock
  11

• JSON serialization error

  #717 opened 4 years ago by enoriega
  7

• NxmLReader problem probably associated to assembly

  #718 opened 4 years ago by enoriega
  19

• /lib64/libc.so.6: version `GLIBC_2.14' not found

  #713 opened 4 years ago by sateeshperi
  6

• Reach release does not look right

  #709 opened 4 years ago by kwalcock
  5

• Maintenance issues

  #695 opened 4 years ago by kwalcock
  7

• Crash due to a dynet error

  #685 opened 4 years ago by bgyori
  5

• Case-sensitive handling of stopwords and overrides

  #680 opened 4 years ago by bgyori
  6

• Allow BioProcess as controller?

  #682 opened 4 years ago by bgyori
  1

• FamPlex with incorrect keys in xrefs

  #671 opened 4 years ago by bgyori
  2

• Out of memory error during sbt assembly

  #668 opened 4 years ago by bgyori
  12

• assembly subproject still needed?

  #666 opened 4 years ago by MihaiSurdeanu
  3

• Double checking Family resolution

  #664 opened 4 years ago by MihaiSurdeanu
  5