refgenie/refgenconf

Issues

• All commands fail due to a 404 error for openapi.json

  #146 opened 9 months ago by ialbert
  1

• Adopt yacman v1

  #145 opened a year ago by nsheff
  0

• Populate of refgenie registry paths doesn't allow dashes in the genome name

  #141 opened 2 years ago by mirpedrol
  1

• New refgenconf requires python 3.8

  #144 opened 2 years ago by nsheff
  1

• Support for Python 3.10

  #142 opened 2 years ago by fabianegli
  3

• Refgenconf should give a more specific error when an non-existing asset is queried

  #139 opened 3 years ago by nsheff
  2

• Incorrect web link in upgrade message

  #138 opened 3 years ago by rcorces
  0

• get ASDs.json (if missing) on any asset pull

  #117 opened 4 years ago by stolarczyk
  3

• Listing recipe requirements from within python

  #91 opened 5 years ago by nsheff
  2

• get_tag_seek_keys() returns None - leading to potential TypeError: 'NoneType' object is not iterable

  #133 opened 3 years ago by jpsmith5
  2

• Missing dependency on tqdm

  #134 opened 3 years ago by natefoo
  2

• Remove RunTimeWarning

  #131 opened 4 years ago by nsheff
  2

• A list of seek keys

  #128 opened 4 years ago by nsheff
  2

• Improve error message for undefined alias

  #120 opened 4 years ago by nsheff
  0

• alias links to log files appear to be wrong

  #122 opened 4 years ago by nsheff
  4

• using listr in remote mode

  #123 opened 4 years ago by stolarczyk
  1

• tags in `RefGenConf.populate`?

  #125 opened 4 years ago by stolarczyk
  2

• Refgenie populater plugin

  #126 opened 4 years ago by nsheff
  0

• seek remote assets return value

  #121 opened 4 years ago by stolarczyk
  1

• Database back-end for refgenieserver configuration

  #119 opened 4 years ago by nsheff
  2

• Get a list of recipes within python

  #83 opened 5 years ago by nsheff
  4

• Adding values that aren't file paths

  #93 opened 5 years ago by nsheff
  1

• Config upgrade bug: missing ASDs for genomes with no local fasta assets

  #114 opened 4 years ago by xuebingjie1990
  0

• Memory use of genome digest init

  #105 opened 4 years ago by nsheff
  35

• FileExistsError in initialize_genome

  #106 opened 4 years ago by stolarczyk
  0

• init should create data and alias directories

  #110 opened 4 years ago by nsheff
  1

• KeyError: 'aliases'

  #103 opened 4 years ago by nsheff
  1

• better missing ASDs communication in refgenie compare

  #118 opened 4 years ago by stolarczyk
  3

• failed refgenie pull breaks the config

  #115 opened 4 years ago by stolarczyk
  1

• upgrade error on broken URL

  #112 opened 4 years ago by nsheff
  6

• list function overloads python's built-in type

  #108 opened 4 years ago by nsheff
  2

• error in list_assets_by_genome

  #107 opened 4 years ago by nsheff
  3

• add genome_description upon asset pull

  #99 opened 4 years ago by nsheff
  7

• bug in get_remote_data_str ?

  #96 opened 4 years ago by nsheff
  6

• mimic CLI terminology in RefGenConf object's methods

  #86 opened 5 years ago by stolarczyk
  1

• TypeError: tag must be str; got unicode

  #89 opened 5 years ago by nsheff
  1

• malformed string error

  #90 opened 5 years ago by nsheff
  1

• add a refgenie asset programmatically?

  #75 opened 5 years ago by jpsmith5
  10

• list_remote broken.

  #81 opened 5 years ago by nsheff
  3

• get_asset terminology

  #82 opened 5 years ago by nsheff
  2

• list_local is returning strings

  #84 opened 5 years ago by nsheff
  2

• updating config file in pull_asset

  #77 opened 5 years ago by nsheff
  3

• error on slow downloads

  #76 opened 5 years ago by nsheff
  1

• colon is overloaded in tqdm progress bar description

  #73 opened 5 years ago by stolarczyk
  0

• pull_asset changes RGC object attribute outside of __init__

  #69 opened 5 years ago by stolarczyk
  1

• chk_digest_update_child checks and writes asset relationship multiple times

  #70 opened 5 years ago by stolarczyk
  0

• Deal with HTTPError error (missing archives on the server)

  #71 opened 5 years ago by stolarczyk
  0

• Random Errors in output

  #65 opened 5 years ago by nsheff
  1

• pulling an asset with parents should populate their asset_children

  #63 opened 5 years ago by nsheff
  0

• empty dir produced after a negative answer to "large archive" question

  #62 opened 5 years ago by stolarczyk
  0