Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

Compute FASTQ stats from the input samplesheet #205

Merged
merged 138 commits into from
Jul 13, 2024
Merged

Compute FASTQ stats from the input samplesheet #205

merged 138 commits into from
Jul 13, 2024

Commits on Jun 17, 2024

  1. add initial version of strand bias filter

    @abhi18av
    abhi18av committed Jun 17, 2024
    Configuration menu
    Copy the full SHA
    dc56775 View commit details
    Browse the repository at this point in the history

  2. add CLI interface to the script

    @abhi18av
    abhi18av committed Jun 17, 2024
    Configuration menu
    Copy the full SHA
    c684702 View commit details
    Browse the repository at this point in the history

Commits on Jun 18, 2024

  1. update variable names

    @abhi18av
    abhi18av committed Jun 18, 2024
    Configuration menu
    Copy the full SHA
    9271829 View commit details
    Browse the repository at this point in the history

  2. finalized the script for strand bias

    @abhi18av
    abhi18av committed Jun 18, 2024
    Configuration menu
    Copy the full SHA
    508d9ff View commit details
    Browse the repository at this point in the history

  3. initial code for the process

    @abhi18av
    abhi18av committed Jun 18, 2024
    Configuration menu
    Copy the full SHA
    ea994b9 View commit details
    Browse the repository at this point in the history

  4. Merge branch 'develop' into strain-bias-filter

    @abhi18av
    abhi18av committed Jun 18, 2024
    Configuration menu
    Copy the full SHA
    e9836e8 View commit details
    Browse the repository at this point in the history

  5. add a temporary misc container with the relevant deps

    @abhi18av
    abhi18av committed Jun 18, 2024
    Configuration menu
    Copy the full SHA
    3985f42 View commit details
    Browse the repository at this point in the history

  6. tweak the config

    @abhi18av
    abhi18av committed Jun 18, 2024
    Configuration menu
    Copy the full SHA
    e9ca14a View commit details
    Browse the repository at this point in the history

  7. temporarily hard-code the container

    @abhi18av
    abhi18av committed Jun 18, 2024
    Configuration menu
    Copy the full SHA
    f91de71 View commit details
    Browse the repository at this point in the history

  8. Merge branch 'strain-bias-filter' into fastq-stats

    @abhi18av
    abhi18av committed Jun 18, 2024
    Configuration menu
    Copy the full SHA
    33e9028 View commit details
    Browse the repository at this point in the history

  9. Add further stubs

    @abhi18av
    abhi18av committed Jun 18, 2024
    Configuration menu
    Copy the full SHA
    42eed3a View commit details
    Browse the repository at this point in the history

Commits on Jun 19, 2024

  1. Merge branch 'develop' into fastq-stats

    @abhi18av
    abhi18av committed Jun 19, 2024
    Configuration menu
    Copy the full SHA
    85967d7 View commit details
    Browse the repository at this point in the history

  2. interim commit

    @abhi18av
    abhi18av committed Jun 19, 2024
    Configuration menu
    Copy the full SHA
    d300fad View commit details
    Browse the repository at this point in the history

  3. samples which have passed

    @abhi18av
    abhi18av committed Jun 19, 2024
    Configuration menu
    Copy the full SHA
    521895c View commit details
    Browse the repository at this point in the history

  4. fix imports and relevant params

    @abhi18av
    abhi18av committed Jun 19, 2024
    Configuration menu
    Copy the full SHA
    d125f5e View commit details
    Browse the repository at this point in the history

  5. dev iteration

    @abhi18av
    abhi18av committed Jun 19, 2024
    Configuration menu
    Copy the full SHA
    6817409 View commit details
    Browse the repository at this point in the history

  6. dev iteration

    @abhi18av
    abhi18av committed Jun 19, 2024
    Configuration menu
    Copy the full SHA
    0b5971e View commit details
    Browse the repository at this point in the history

  7. dev iteration

    @abhi18av
    abhi18av committed Jun 19, 2024
    Configuration menu
    Copy the full SHA
    8a7e07e View commit details
    Browse the repository at this point in the history

  8. dev iteration

    @abhi18av
    abhi18av committed Jun 19, 2024
    Configuration menu
    Copy the full SHA
    eab7830 View commit details
    Browse the repository at this point in the history

  9. dev iteration

    @abhi18av
    abhi18av committed Jun 19, 2024
    Configuration menu
    Copy the full SHA
    dd028c6 View commit details
    Browse the repository at this point in the history

  10. dev iteration

    @abhi18av
    abhi18av committed Jun 19, 2024
    Configuration menu
    Copy the full SHA
    eb216a7 View commit details
    Browse the repository at this point in the history

  11. dev iteration

    @abhi18av
    abhi18av committed Jun 19, 2024
    Configuration menu
    Copy the full SHA
    91ffa02 View commit details
    Browse the repository at this point in the history

  12. dev iteration

    @abhi18av
    abhi18av committed Jun 19, 2024
    Configuration menu
    Copy the full SHA
    da83561 View commit details
    Browse the repository at this point in the history

  13. dev iteration

    @abhi18av
    abhi18av committed Jun 19, 2024
    Configuration menu
    Copy the full SHA
    e1576dc View commit details
    Browse the repository at this point in the history

  14. weed out some code

    @abhi18av
    abhi18av committed Jun 19, 2024
    Configuration menu
    Copy the full SHA
    32071b3 View commit details
    Browse the repository at this point in the history

Commits on Jun 22, 2024

  1. implement an initial python script

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    bdef346 View commit details
    Browse the repository at this point in the history

  2. tweak the script usage

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    7f313be View commit details
    Browse the repository at this point in the history

  3. publish fastq stats by default (for now)

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    af0b380 View commit details
    Browse the repository at this point in the history

  4. iterate to unify the fastq validation and stats

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    3d63947 View commit details
    Browse the repository at this point in the history

  5. remove dependency between the validation and stats processes

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    96f7bfb View commit details
    Browse the repository at this point in the history

  6. add a samplesheet

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    f10397a View commit details
    Browse the repository at this point in the history

  7. dev iteration on the idea of magma_dict

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    3407c2f View commit details
    Browse the repository at this point in the history

  8. iterate on fastq_validation

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    c4ec1d9 View commit details
    Browse the repository at this point in the history

  9. dev iteration

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    a75888a View commit details
    Browse the repository at this point in the history

  10. dev iteration

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    2c69432 View commit details
    Browse the repository at this point in the history

  11. remove flagged args

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    61747d0 View commit details
    Browse the repository at this point in the history

  12. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    0dfb00d View commit details
    Browse the repository at this point in the history

  13. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    1e56f91 View commit details
    Browse the repository at this point in the history

  14. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    444b845 View commit details
    Browse the repository at this point in the history

  15. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    5bce654 View commit details
    Browse the repository at this point in the history

  16. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    f11fc7f View commit details
    Browse the repository at this point in the history

  17. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    2955c8f View commit details
    Browse the repository at this point in the history

  18. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    4116e76 View commit details
    Browse the repository at this point in the history

  19. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    eb75fb9 View commit details
    Browse the repository at this point in the history

  20. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    f99f8fa View commit details
    Browse the repository at this point in the history

  21. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    dfbb8bd View commit details
    Browse the repository at this point in the history

  22. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    febfee2 View commit details
    Browse the repository at this point in the history

  23. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    f1ab57c View commit details
    Browse the repository at this point in the history

  24. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    75d2e13 View commit details
    Browse the repository at this point in the history

  25. dev iteration

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    def07b1 View commit details
    Browse the repository at this point in the history

  26. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    1538ffb View commit details
    Browse the repository at this point in the history

  27. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    8bee9b0 View commit details
    Browse the repository at this point in the history

  28. dev iteration

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    240196f View commit details
    Browse the repository at this point in the history

  29. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    9451118 View commit details
    Browse the repository at this point in the history

  30. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    47c8611 View commit details
    Browse the repository at this point in the history

  31. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    9f0c8e4 View commit details
    Browse the repository at this point in the history

  32. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    9a7e6e6 View commit details
    Browse the repository at this point in the history

  33. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    0115629 View commit details
    Browse the repository at this point in the history

  34. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    b342903 View commit details
    Browse the repository at this point in the history

  35. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    5fe1221 View commit details
    Browse the repository at this point in the history

  36. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    ba9c4ec View commit details
    Browse the repository at this point in the history

  37. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    b5e2a46 View commit details
    Browse the repository at this point in the history

  38. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    5c9a062 View commit details
    Browse the repository at this point in the history

  39. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    0972609 View commit details
    Browse the repository at this point in the history

  40. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    2f0b761 View commit details
    Browse the repository at this point in the history

  41. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    eb32e65 View commit details
    Browse the repository at this point in the history

  42. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    b864c60 View commit details
    Browse the repository at this point in the history

  43. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    48ec23f View commit details
    Browse the repository at this point in the history

  44. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    2941e12 View commit details
    Browse the repository at this point in the history

  45. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    7d32460 View commit details
    Browse the repository at this point in the history

  46. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    e2d7f43 View commit details
    Browse the repository at this point in the history

  47. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 22, 2024
    Configuration menu
    Copy the full SHA
    f21a650 View commit details
    Browse the repository at this point in the history

Commits on Jun 23, 2024

  1. dev iteration [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    e0ee3ac View commit details
    Browse the repository at this point in the history

  2. improve partial workflows [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    bc30f3a View commit details
    Browse the repository at this point in the history

  3. improve partial workflows [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    b681e79 View commit details
    Browse the repository at this point in the history

  4. improve partial workflows [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    6644d13 View commit details
    Browse the repository at this point in the history

  5. improve partial workflows [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    b935da2 View commit details
    Browse the repository at this point in the history

  6. improve partial workflows [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    e4ab287 View commit details
    Browse the repository at this point in the history

  7. improve partial workflows [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    7dd1f74 View commit details
    Browse the repository at this point in the history

  8. move all computations to samplesheet validation

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    c99cf80 View commit details
    Browse the repository at this point in the history

  9. accomodate the sample maps [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    317e325 View commit details
    Browse the repository at this point in the history

  10. accomodate the sample maps [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    7b989e9 View commit details
    Browse the repository at this point in the history

  11. escape the bam string

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    d399c71 View commit details
    Browse the repository at this point in the history

  12. accomodate the sample maps [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    4234d08 View commit details
    Browse the repository at this point in the history

  13. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    17c3216 View commit details
    Browse the repository at this point in the history

  14. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    b31652d View commit details
    Browse the repository at this point in the history

  15. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    64b366e View commit details
    Browse the repository at this point in the history

  16. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    92ca311 View commit details
    Browse the repository at this point in the history

  17. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    39dc91d View commit details
    Browse the repository at this point in the history

  18. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    aad25e0 View commit details
    Browse the repository at this point in the history

  19. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    2415d98 View commit details
    Browse the repository at this point in the history

  20. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    dfc9eed View commit details
    Browse the repository at this point in the history

  21. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    3fd986a View commit details
    Browse the repository at this point in the history

  22. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    074579c View commit details
    Browse the repository at this point in the history

  23. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    1ad99a4 View commit details
    Browse the repository at this point in the history

  24. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    4a2a04a View commit details
    Browse the repository at this point in the history

  25. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    fd2082c View commit details
    Browse the repository at this point in the history

  26. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    2daed4d View commit details
    Browse the repository at this point in the history

  27. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    788e77d View commit details
    Browse the repository at this point in the history

  28. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    af12af2 View commit details
    Browse the repository at this point in the history

  29. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    96bb9a3 View commit details
    Browse the repository at this point in the history

  30. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    1f966b4 View commit details
    Browse the repository at this point in the history

  31. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    973a06e View commit details
    Browse the repository at this point in the history

  32. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    0c48595 View commit details
    Browse the repository at this point in the history

  33. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    e51cc4d View commit details
    Browse the repository at this point in the history

  34. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    ee3fb9b View commit details
    Browse the repository at this point in the history

  35. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    4a52996 View commit details
    Browse the repository at this point in the history

  36. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    0c21c99 View commit details
    Browse the repository at this point in the history

  37. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    c1e77ef View commit details
    Browse the repository at this point in the history

  38. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    c9b516a View commit details
    Browse the repository at this point in the history

  39. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    39b28af View commit details
    Browse the repository at this point in the history

  40. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    da8b8fc View commit details
    Browse the repository at this point in the history

  41. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    112f22e View commit details
    Browse the repository at this point in the history

  42. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    5744194 View commit details
    Browse the repository at this point in the history

  43. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    d013b4b View commit details
    Browse the repository at this point in the history

  44. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    c86c9b9 View commit details
    Browse the repository at this point in the history

  45. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    1710881 View commit details
    Browse the repository at this point in the history

  46. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    cf61c60 View commit details
    Browse the repository at this point in the history

  47. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    94b0979 View commit details
    Browse the repository at this point in the history

  48. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    ae79178 View commit details
    Browse the repository at this point in the history

  49. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    68ff034 View commit details
    Browse the repository at this point in the history

  50. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    4f418eb View commit details
    Browse the repository at this point in the history

  51. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    3eb05c0 View commit details
    Browse the repository at this point in the history

  52. reconnect to the overall workflow [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    d1a8ed5 View commit details
    Browse the repository at this point in the history

  53. accomodate the sample maps [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    b2604bf View commit details
    Browse the repository at this point in the history

  54. accomodate the sample maps [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    025ab76 View commit details
    Browse the repository at this point in the history

  55. accomodate the sample maps [ci skip]

    @abhi18av
    abhi18av committed Jun 23, 2024
    Configuration menu
    Copy the full SHA
    43c012a View commit details
    Browse the repository at this point in the history

Commits on Jun 25, 2024

  1. dev iteration

    @abhi18av
    abhi18av committed Jun 25, 2024
    Configuration menu
    Copy the full SHA
    6d15a48 View commit details
    Browse the repository at this point in the history

Commits on Jun 30, 2024

  1. remove unused workflow file

    @abhi18av
    abhi18av committed Jun 30, 2024
    Configuration menu
    Copy the full SHA
    ee99975 View commit details
    Browse the repository at this point in the history

Commits on Jul 1, 2024

  1. update default retry policy [ci skip]

    @abhi18av
    abhi18av committed Jul 1, 2024
    Configuration menu
    Copy the full SHA
    35f1a97 View commit details
    Browse the repository at this point in the history

Commits on Jul 8, 2024

  1. Merge branch 'develop' into fastq-stats

    @abhi18av
    abhi18av committed Jul 8, 2024
    Configuration menu
    Copy the full SHA
    0e05cd2 View commit details
    Browse the repository at this point in the history

  2. Simplify the samplesheet (#204) 

    * simplify samplesheet, initial design

* fix dangling reference for exit_rif gvcf

* fix dangling reference again

* fix typo

* fix more typos
    @abhi18av
    abhi18av authored Jul 8, 2024
    Configuration menu
    Copy the full SHA
    cac19d9 View commit details
    Browse the repository at this point in the history

  3. Rename the threshold variables [ci skip]

    @abhi18av
    abhi18av committed Jul 8, 2024
    Configuration menu
    Copy the full SHA
    2be9944 View commit details
    Browse the repository at this point in the history

Commits on Jul 13, 2024

  1. fix

    @abhi18av
    abhi18av committed Jul 13, 2024
    Configuration menu
    Copy the full SHA
    1f9ae3d View commit details
    Browse the repository at this point in the history

  2. save intermediate du_md5sum stats

    @abhi18av
    abhi18av committed Jul 13, 2024
    Configuration menu
    Copy the full SHA
    294e350 View commit details
    Browse the repository at this point in the history

  3. tweak the deletion of intermediate files

    @abhi18av
    abhi18av committed Jul 13, 2024
    Configuration menu
    Copy the full SHA
    18eac9a View commit details
    Browse the repository at this point in the history

  4. accommodate missing field values in samplesheet

    @abhi18av
    abhi18av committed Jul 13, 2024
    Configuration menu
    Copy the full SHA
    e6c9f17 View commit details
    Browse the repository at this point in the history

  5. remove unused script

    @abhi18av
    abhi18av committed Jul 13, 2024
    Configuration menu
    Copy the full SHA
    241f665 View commit details
    Browse the repository at this point in the history