dnanexus/dxCompiler

Issues

• Feature request: Support WDL 1.2 and/or retry attempt in task

  #479 opened 2 months ago by Ben-Habermeyer
  0

• dxCompiler doesn't seem to work with recent versions of java

  #468 opened 5 months ago by LiterallyUniqueLogin
  0

• Failed to generate Array[File] with optional input

  #466 opened 5 months ago by nttg8100
  0

• java.lang.IllegalArgumentException: Invalid HTTP host: 127.0.0.1:7890/

  #459 opened 10 months ago by HackerLZH
  0

• [error] org.fusesource.scalate.TemplateException:

  #457 opened a year ago by geocarvalho
  1

• CWL workflow complied to include a subworkflow with an `outputs` applet fails to run successfully

  #455 opened a year ago by ThomasHickman
  1

• UK Biobank RAP path with spaces in it

  #454 opened a year ago by nshrine
  3

• variable declaration prevents workflow from running in parallel in dxCompiler 2.10.2

  #378 opened a year ago by Ben-Habermeyer
  5

• [error] You must be logged in to compile using mode All

  #438 opened a year ago by OmegaPetrazzini
  5

• WDL tasks in docker containers are missing DX environment variables

  #453 opened a year ago by ANickerson
  1

• Scatter limit override

  #416 opened 2 years ago by barneyhill
  3

• dxCompiler possibly incorrect localizes input file expressions

  #417 opened 2 years ago by LiterallyUniqueLogin
  11

• wdl 1.1 `sep()` vs command block `~{sep}` return different values

  #435 opened 2 years ago by Ben-Habermeyer
  2

• Preserve folder hierarchies on the platform

  #415 opened 2 years ago by RachelDuffin
  10

• slow compilation "unable to parse field default value null"

  #412 opened 2 years ago by Ben-Habermeyer
  12

• InvalidInput: i/o value reads needs to be given using DNAnexus links

  #414 opened 2 years ago by RachelDuffin
  0

• Task with stubbed applet as runtime does not obey instance type

  #406 opened 2 years ago by Ben-Habermeyer
  5

• Apollo - Spark and cohort files

  #402 opened 2 years ago by ANickerson
  0

• Downloading lots of small files

  #399 opened 2 years ago by barneyhill
  0

• difficulty setting a default docker image

  #392 opened 2 years ago by 23andme-jaredo
  1

• dxcompiler can not process Pair object

  #386 opened 2 years ago by madetunj
  2

• Array[String?] compiles incorrectly to "(hash" and "(array:file)"

  #389 opened 2 years ago by msnyder424
  0

• Runtime error coercing optional array in zip/scatter

  #358 opened 2 years ago by Ben-Habermeyer
  4

• Compilation unrecognized exception with default String? = None

  #351 opened 2 years ago by Ben-Habermeyer
  8

• Runtime error with default string = ""

  #364 opened 2 years ago by Ben-Habermeyer
  0

• Feature request: Setting per workflow custom reorg applet

  #180 opened 3 years ago by dolevrahat
  2

• sub-workflow defaults not overridden by provided value

  #182 opened 3 years ago by Ben-Habermeyer
  5

• Feature request: runtime evaluation of docker tarball on DNANexus

  #119 opened 3 years ago by zhoulytwinyu
  2

• What does this mean?

  #149 opened 3 years ago by BJWiley233
  8

• dx_instance_type runtime keywork not recongizned in compiling WDL v1.1 and development version

  #194 opened 3 years ago by dolevrahat
  3

• java.lang.AssertionError: assertion failed: only the last part may end with '_', and only if the suffix does not start with '_'

  #282 opened 3 years ago by adthrasher
  3

• Add test coverage tracking

  #69 opened 3 years ago by jdidion
  1

• ParsingException when compiling CWL

  #242 opened 3 years ago by tschoonj
  2

• type T_Optional(T_Float) is not coercible to string

  #134 opened 3 years ago by lfrancioli
  2

• Automatically fix use of optionals in expressions

  #150 opened 3 years ago by jdidion
  0

• issue with GATK wdls

  #148 opened 3 years ago by ahdee
  3

• Inputs produced by dxCompiler

  #139 opened 4 years ago by lfrancioli
  2

• Coercing Array[String] to Array[Int]

  #27 opened 4 years ago by pdexheimer
  4

• Supporting WDL 1.0 "struct"

  #89 opened 4 years ago by zhoulytwinyu
  2

• Review unsatisfied task inputs spec change, see if any dxCompiler changes are required

  #8 opened 4 years ago by jdidion
  0

• Update util.py to build separate assets for dxWDL and dxCWL

  #3 opened 4 years ago by jdidion
  0