blobtoolkit / pipeline

[Archived] SnakeMake pipeline to run BlobTools on public assemblies

https://blobtoolkit.genomehubs.org

blobtoolkit/pipeline Issues

Error: NCBI C++ Exception: Error: (CSerialException::eOverflow) byte 84: overflow error ( at [].[].gi) Error: (CSerialException::eOverflow) ncbi::CMemberInfoFunctions::ReadWithSetFlagMember() - error while reading seqid ( at Blast-def-line-set.[].[].seqid.[].[].gi)
Closed a year ago3
Pipeline fails: no Snakefile found, replaceHits error (v2.6.5)
Closed a year ago2
Snail Plot (Busco error)
Closed 2 years ago4
Error: NCBI C++ Exception in blastn step
Closed 2 years ago3
Downloading uniprot databse
Closed 2 years ago4
cannot filter-AttributeError: 'bool' object has no attribute 'values'
Closed a year ago3
view step sometimes generates empty blob.circle.png
Closed a year ago
read mapping should use CRAM format
Closed a year ago
Running on local assembly still a bit ambiguous
Closed a year ago2
chunk_fasta.py "fails" when running outside of snakemake
Closed 3 years ago1
[v2.6.1] run_blobtools_create dies; possible latency issue?
Closed 3 years ago3
[v2.6.1] BUSCO "KeyError" 'download_dir'
Closed 3 years ago6
KeyError: run_busco_v5
Closed 3 years ago5
[v2.6.1] Snakemake TypeError: '>' not supported between instances of 'int' and 'str'
Closed 3 years ago2
[v2.6.0] Windowmasker KeyError in line 6 of unzip_assembly_fasta.smk
Closed 3 years ago2
Extract_busco_genes and chunk_fasta (v2.5)
Closed 3 years ago2
Max-target-seqs and evalue parameters (v2.5)
Closed 3 years ago3
--configfile directory getting truncated? (v2.5)
Closed 3 years ago1
Error: Missing input files for rule run_diamond_blastx_chunks
Closed 3 years ago6
Local pipeline fails without internet access
Closed 4 years ago4
Documentation: No snake_env in install instructions
Closed 4 years ago4
Running pipeline locally crashes at generate_metadata - preceding steps seem erroneous
Closed 3 years ago2
BlobToolKit Viewer link doesn't load
Closed 4 years ago
running pipeline locally with singularity (or docker)
Closed 4 years ago12
"pool" error with blastn
Closed 4 years ago2
Can't have "." in assembly prefix
Closed 5 years ago2