Closed splaisan closed 4 years ago
Thus I had an old version of artic although the reported version was 1.0.0 :-( reinstalled and gained the new function guppyplex
artic -h
usage: artic [-h] [-v]
{extract,basecaller,demultiplex,minion,gather,guppyplex,filter,rampart,run}
...
optional arguments:
-h, --help show this help message and exit
-v, --version Installed Artic version
[sub-commands]:
{extract,basecaller,demultiplex,minion,gather,guppyplex,filter,rampart,run}
extract Create an empty poredb database
basecaller Display basecallers in files
demultiplex Run demultiplex
minion Run demultiplex
gather Gather up demultiplexed files
guppyplex Aggregate pre-demultiplexed reads from MinKNOW/Guppy
filter Filter FASTQ files by length
rampart Interactive prompts to start RAMPART
run Process an entire run folder interactively
$ artic --version
artic 1.0.0
Probably a stupid error of mine, I installed Artic from github a couple of weeks ago and try to run the tutorial from https://artic.network/ncov-2019/ncov2019-bioinformatics-sop.html on my ubuntu 16 server with guppy and ONT software present.
should I replace :
artic guppyplex --min-length 400 --max-length 700 --directory output_directory/barcode03 --prefix run_name
by some other command?
Is my conda env outdated?
Thanks