metagenome-atlas/atlas

Issues

• What is inside intermediate folder after qc and what can be removed to save space on device?

  #740 opened a month ago by bioinfogini
  3

• BinGroup error when start running

  #741 opened a month ago by hbyaoherbert
  1

• log names inconsistencies

  #737 opened a month ago by strejcem
  1

• Atlas was not able to download a key database

  #738 opened 2 months ago by ShevchenkoAlla
  2

• Unable to start any analysis. error libmamba Non-conda folder exists at prefix

  #739 opened 2 months ago by bioinfogini
  1

• Error in rule

  #731 opened 2 months ago by bharat1912
  6

• Error in rule `dram_download`

  #733 opened 5 months ago by bharat1912
  2

• plans for supporting fungi

  #719 opened 5 months ago by jotech
  5

• Error during DRAM download; processing vogdb

  #718 opened 6 months ago by abarilo
  6

• Support for highly accurate long reads?

  #721 opened 6 months ago by MrTomRod
  1

• Error in rule build_qc_report: ModuleNotFoundError: No module named 'numpy._version'

  #722 opened 7 months ago by the-eon-flux
  2

• What does "max" in the combined_contig_stats.tsv mean?

  #720 opened 8 months ago by s-junguy
  1

• Error in rule get_bins: only 1 conting found in samples

  #717 opened 9 months ago by anbadilla
  0

• atlas init-public no such command

  #704 opened 9 months ago by claireewilliams
  2

• Error in rule multiqc_mapping_genome due to incontability with python 3.12

  #702 opened a year ago by valery-shap
  13

• Error in rule

  #707 opened a year ago by yustinus1
  5

• Error in rule

  #692 opened a year ago by bbagy
  11

• Define default resources

  #676 opened a year ago by SilasK
  15

• genome_filter_criteria is printed on two lines

  #689 opened a year ago by SilasK
  1

• Run atlas genomes without the taxonomy output

  #705 opened a year ago by AnneliektH
  2

• MissingOutputException

  #710 opened a year ago by topfm
  2

• Progressing despite individual binner failure

  #651 opened 2 years ago by mladen5000
  3

• Error in rule run_spades

  #708 opened a year ago by s-junguy
  19

• I am alway stuck at 3% done

  #691 opened a year ago by Patcha-pou
  2

• Process for determining % of data binned?

  #690 opened a year ago by maggieweng
  2

• atlas downdload fail

  #700 opened a year ago by jowodo
  6

• Disk_mem not sufficient

  #706 opened a year ago by SilasK
  6

• Setting eggNOG_use_virtual_disk to true

  #701 opened a year ago by Roxy-mzh
  4

• Question about co-binning behavior

  #688 opened a year ago by mladen5000
  8

• Creating envs (--conda-create-envs-only) is running without error, but not creating envs

  #703 opened a year ago by LLansing
  1

• Error in localrule parse_vamb_output:

  #698 opened a year ago by the-eon-flux
  5

• NaNs in samples.tsv

  #695 opened a year ago by AroArz
  6

• atlas metatranscriptome data - MissingOutputException in rule run_spades

  #696 opened a year ago by jilldv
  19

• download wrapper on head node

  #675 opened a year ago by jotech
  8

• Error in rule run_vamb

  #693 opened a year ago by AroArz
  2

• Error in rule get_all_modules

  #655 opened a year ago by mladen5000
  12

• Output directory

  #687 opened a year ago by susheelbhanu
  2

• Error in rule

  #686 opened a year ago by robbueck
  2

• Error in rule combine_egg_nogg_annotations

  #653 opened a year ago by mladen5000
  2

• Error in rule rename_genomes

  #685 opened a year ago by XC-Zhai
  10

• Reuse existing genome taxonomy database (gtdb) when installing conda environments

  #680 opened a year ago by jotech
  2

• Error in rule dram_download

  #664 opened a year ago by jotech
  21

• Error in rule rule apply_quality_filter

  #668 opened a year ago by jotech
  8

• Error in rule download_gtdb

  #673 opened a year ago by mladen5000
  1

• skani parameter usage in atlas derep

  #672 opened a year ago by bluenote-1577
  2

• Improvement of offline cluster mode

  #666 opened 2 years ago by jotech
  2

• Error in rule run_das_tool for test

  #665 opened 2 years ago by XC-Zhai
  5

• clean up

  #662 opened 2 years ago by slambrechts
  3

• checmk2 ERROR: DIAMOND database not found

  #657 opened 2 years ago by JustinGibbons
  7

• Error in rule DRAM_destill

  #654 opened 2 years ago by mladen5000
  1