Comments (2)
Update the local module to the latest CAT version or add CAT
to nf-core/modules and use this.
from mag.
Closing for this: #611 as it has more up-to-date info and is not becoming a problem
from mag.
Related Issues (20)
- Add coverm/contig and coverm/genome as options for calculating read alignment metrics
- Expanded documentation for nf-core/mag use cases & downstream analysis
- Add documentation detailing phageome/virome analysis
- Pipeline fails if only CONCOCT is turned on and other binners off
- CONCOCT (slow) HOT 1
- Single end data input
- Problem with DUMPSOFTWAREVERSIONS HOT 2
- Centrifuge error - (ERR): mkfifo(/tmp/46.inpipe1) failed. HOT 3
- NFCORE_MAG:MAG:GTDBTK:GTDBTK_CLASSIFYWF fails when all genomes classified by ANI screening step HOT 4
- CHECKM_LINEAGEWF failing with exit status 1 HOT 7
- Error in executing PROKKA HOT 4
- Bins in CheckM summary do not match bins in bin depths summary HOT 7
- add diamond support to mag
- Improve documentation on the effects of completeness/contamination filters
- Replace CheckM with CheckM2 HOT 1
- Genome taxnomic classification with Sourmash HOT 3
- Pipeline completed sucessfully, but with errored process(es) HOT 1
- CAT_DB process has harcoded CAT subdirectory names HOT 1
- List of tool versions HOT 1
- Skipping NFCORE_MAG:MAG:BOWTIE2_PHIX_REMOVAL_ALIGN HOT 5
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