Issues

• better parallelization

  enhancement
  jvrana/DASi-DNA-Design#55 · Filter by author jvrana opened on Jul 21, 2020
  1

• dasi.exceptions.DasiSequenceDesignException: Sequence is cyclic but there are no precessors for AssemblyNode(index=0, expandable=True, type='A', overhang=False)

  bug
  jvrana/DASi-DNA-Design#54 · Filter by author jvrana opened on Apr 11, 2020

• Long Gibson Assembly Parameters should be different than short gibson assemblies

  enhancement
  jvrana/DASi-DNA-Design#52 · Filter by author jvrana opened on Mar 5, 2020

• Designs should keep record of errors (instead of raising Exception)

  enhancement
  jvrana/DASi-DNA-Design#51 · Filter by author jvrana opened on Mar 5, 2020

• Annotations on SeqRecords are not being carried through to output.

  bug
  jvrana/DASi-DNA-Design#50 · Filter by author jvrana opened on Feb 9, 2020

• Users should be able to control thresholds for valid primer pairs

  enhancement
  jvrana/DASi-DNA-Design#49 · Filter by author jvrana opened on Feb 7, 2020

• Add examples module users can pull from to test out DASi

  enhancement
  jvrana/DASi-DNA-Design#48 · Filter by author jvrana opened on Feb 7, 2020

• Information about input sequences should be present in

  enhancement
  jvrana/DASi-DNA-Design#47 · Filter by author jvrana opened on Feb 5, 2020

• Bug: Sequence is cyclic but there are no precessors error

  bug
  jvrana/DASi-DNA-Design#46 · Filter by author jvrana opened on Feb 5, 2020

• Attach notes to edges when efficiency is adjusted in Graph post processing

  enhancement
  jvrana/DASi-DNA-Design#45 · Filter by author jvrana opened on Feb 4, 2020

• Find invalid assemblies

  bugenhancement
  jvrana/DASi-DNA-Design#44 · Filter by author jvrana opened on Feb 3, 2020

• JSON Schema display in Sphinx should be more condensed

  documentation
  jvrana/DASi-DNA-Design#43 · Filter by author jvrana opened on Feb 3, 2020

• DASi should issue a warning for highly complex repetitive sequences before transformation into bacteria

  enhancement
  jvrana/DASi-DNA-Design#41 · Filter by author jvrana opened on Feb 3, 2020

• Better Integration between Aquarium <> Terrarium <> DASi <> {Benchling, SynBioHub}

  Epic
  jvrana/DASi-DNA-Design#40 · Filter by author jvrana opened on Feb 3, 2020

• Clean up integration IO for DASi

  jvrana/DASi-DNA-Design#39 · Filter by author jvrana opened on Feb 3, 2020

• Understand why some designs fail to assemble

  bugenhancement
  jvrana/DASi-DNA-Design#38 · Filter by author jvrana opened on Feb 3, 2020

• Preferrably tests short tests in automated CI

  enhancement
  jvrana/DASi-DNA-Design#37 · Filter by author jvrana opened on Feb 3, 2020

• DNA complexity tests sometimes fail

  jvrana/DASi-DNA-Design#36 · Filter by author jvrana opened on Feb 3, 2020

• Randomized tests occasionally fails

  jvrana/DASi-DNA-Design#35 · Filter by author jvrana opened on Feb 3, 2020

• Randomized tests occassionally fail

  bugEpic
  jvrana/DASi-DNA-Design#34 · Filter by author jvrana opened on Feb 3, 2020

• SBOL Output

  enhancement
  jvrana/DASi-DNA-Design#33 · Filter by author jvrana opened on Feb 3, 2020

• Improve Documentation

  documentation
  jvrana/DASi-DNA-Design#32 · Filter by author jvrana opened on Feb 3, 2020

• Shared sequence cost often does not match final cost

  bug
  jvrana/DASi-DNA-Design#30 · Filter by author jvrana opened on Feb 2, 2020

• Better explaination for DASi design failures

  bugenhancement
  jvrana/DASi-DNA-Design#29 · Filter by author jvrana opened on Feb 2, 2020

• JSON output schema

  enhancement
  jvrana/DASi-DNA-Design#28 · Filter by author jvrana opened on Feb 2, 2020