epi2me-labs/wf-bacterial-genomes

Issues

• Error executing process > 'calling_pipeline:medakaNetwork (1)'

  #40 opened a month ago by ycuesta
  6

• Pipeline failure from process 'calling_pipeline:makeReport"

  #45 opened 4 months ago by forty2wallabyway
  2

• can only analyse one barcode at a time

  #44 opened 4 months ago by nrt94
  1

• wf-bacterial-genomes stopped with error

  #36 opened 4 months ago by liatslu
  3

• Can unclassified bams from basecalling which could not be demultplexed, be of some use in reference based assembly

  #43 opened 4 months ago by jibrantahir
  0

• From basecalling to error correction (Fastq to Fasta) as input to wf-bacterial genome

  #42 opened 4 months ago by jibrantahir
  0

• Dorado models v4.3.0

  #25 opened 5 months ago by lagphase
  2

• Basecalling options not included in basecaller.cfg.

  #34 opened 5 months ago by YoungMunLEE
  2

• wf-bacterial-genomes workflow not working

  #41 opened 5 months ago by bunnu27
  2

• Flye circular prediction

  #37 opened 6 months ago by VICTO160
  2

• Help? Error running nextflow run epi2me-labs/wf-bacterial-genomes –-help

  #39 opened 6 months ago by greytear
  5

• Script compilation error on test dataset

  #38 opened 6 months ago by jdiazsupsi
  2

• Collapse contig coverage graphs

  #35 opened 7 months ago by adbeggs
  1

• --profile standard should have one dash

  #24 opened 7 months ago by osilander
  2

• bakta instead of prokka

  #23 opened 7 months ago by splaisan
  3

• Add option for bandage plots in report

  #30 opened 10 months ago by osilander
  1

• Workflow execution completed unsuccessfully! Error executing process > 'calling_pipeline:medakaNetwork (2)'

  #20 opened 8 months ago by Lenfera
  5

• Failed to pull singularity iamge

  #33 opened 8 months ago by adbeggs
  1

• Sample name not included in consensus fasta file

  #31 opened 9 months ago by avantonder
  2

• Output improvements

  #32 opened 9 months ago by fraser-combe
  1

• Error with Demo data

  #29 opened 10 months ago by kiranpatil222
  9

• Does the pipeline have internal error correction?

  #26 opened 10 months ago by weishwu
  1

• Demo data Error: [E::fai_build3_core] Failed to open the file ref.fasta.gz

  #28 opened 10 months ago by kiranpatil222
  7

• Information about circular contigs

  #27 opened 10 months ago by frumencelab
  1

• failing to run test_data

  #22 opened a year ago by splaisan
  3

• failing the test_data run

  #21 opened a year ago by splaisan
  9

• Workflow execution completed unsuccessfully! Error executing process > 'calling_pipeline:medakaNetwork (2)'

  #19 opened a year ago by Lenfera
  1

• Different result from flye 2.9.2

  #18 opened a year ago by Yoon90
  1

• Medaka model for dna_r10.4.1_e8.2_260bps_sup ??

  #11 opened a year ago by lagphase
  4

• Got "No disjointigs were assembled" error when running denovo

  #17 opened a year ago by bsalehe
  1

• [Bug]: error executing process 'calling_pipeline:run_isolates:processResfinder'

  #13 opened a year ago by samuelmontgomery
  7

• SyntaxWarning: "is" with a literal. Did you mean "=="?

  #2 opened a year ago by awh082834
  1

• demo Workflow has terminated but no outputs are available

  #3 opened a year ago by asogg
  2

• [Bug]: Report not taking top hit of 16s quast blast

  #4 opened a year ago by cjalder
  1

• [Bug]: Problem with Metaquast-part of report

  #8 opened a year ago by lknegendorf
  2

• r1041_e82_400bps_sup_v4.2.0 missing from basecaller options

  #15 opened a year ago by WolfgangSchmied
  4

• Use `-profile docker` instead of `-profile standard` when using Docker

  #16 opened a year ago by tavareshugo
  3

• [Bug]: Pipeline terminates with error when specifying more than 4 --threads

  #12 opened a year ago by samuelmontgomery
  2

• [Question]: no gbk output files for the newest version?

  #14 opened a year ago by lagphase
  3

• [Bug]: Error in checking FASTQ and Script

  #9 opened a year ago by phongphak
  2

• Medaka Model

  #1 opened a year ago by llk578496
  2

• [Bug]: program doesn't run

  #7 opened a year ago by matteo1313
  2

• [Bug]: No VCF file output?

  #6 opened a year ago by morgansobol
  2

• [Bug]: Failed to build prokka singularity image

  #10 opened 2 years ago by thanhleviet
  0

• workflow fails with demo data

  #5 opened 2 years ago by baynec2
  6