1. 09 Sep, 2021 1 commit
    • van den Berg's avatar
      Increase the maximum number of junction reads · a381c61f
      van den Berg authored
      Fusioncatcher crashes if the maximum number of junction reads is
      exceeded. This commit adds a parameter to the fusioncatcher rule to
      make this configurable, and also increases the default limit from 100000
      to 150000.
      a381c61f
  2. 25 Mar, 2020 1 commit
    • van den Berg's avatar
      Remove Rattle dependency · ffa4810e
      van den Berg authored
      Rattle is an extension to snakemake which makes it easier to work with
      settings and output files. It was developed to work around some of the
      limitations in earliers versions of Snakemake. Now that Snakemake has
      matured, Rattle does not provide any benefit over vanilla Snakemake.
      ffa4810e
  3. 11 Mar, 2020 1 commit
  4. 05 Mar, 2020 1 commit
  5. 19 Feb, 2020 3 commits
  6. 18 Feb, 2020 3 commits
  7. 13 Feb, 2020 3 commits
  8. 28 Jan, 2020 1 commit
  9. 23 Jan, 2020 1 commit
  10. 28 Aug, 2019 1 commit
  11. 22 Aug, 2019 1 commit
  12. 15 Aug, 2019 1 commit
  13. 06 Jun, 2019 3 commits
    • van den Berg's avatar
      Add conda env for fusioncatcher · 60dfb09e
      van den Berg authored
      Switch to version 1.00 of fusioncatcher, which is available from conda
      like most other tools. Remove the fusioncatcher_exe entry from
      config-base.yml, and update the Snakefile to use fusioncatcher from
      conda.
      
      As a side effect, all optional parts of the pipeline which depend on the
      availability can now be executed by default.
      
      README.md has been updated to reflect these changes
      60dfb09e
    • van den Berg's avatar
      Prevent circular dependencies · 75783868
      van den Berg authored
      75783868
    • van den Berg's avatar
      Prevent circular dependencies · cd305e7b
      van den Berg authored
      cd305e7b
  14. 22 May, 2019 1 commit
  15. 08 May, 2018 1 commit
  16. 25 Apr, 2018 1 commit
  17. 22 Jan, 2018 1 commit
  18. 08 Aug, 2017 1 commit
  19. 16 May, 2017 1 commit
  20. 15 May, 2017 3 commits
  21. 09 May, 2017 2 commits