diff --git a/scripts/get_singularity.py b/scripts/get_singularity.py index d7f443a..3abdec2 100755 --- a/scripts/get_singularity.py +++ b/scripts/get_singularity.py @@ -31,7 +31,8 @@ def get_images(jsonfile, outdir): newname = contname.replace('docker://', '') newname = newname.replace('/', '-') newname = outdir + "/" + newname.replace(':', '-') + ".img" - execDict[newname] = "singularity pull --name " + newname + " " + args.prefix + contname + uri = contname if contname.startswith("docker://") else args.prefix + contname + execDict[newname] = "singularity pull --name " + newname + " " + uri for new_contname in execDict: print("Downloading to " + new_contname) diff --git a/subworkflows/basecalling/dorado.nf b/subworkflows/basecalling/dorado.nf index 36fb2f7..fe360ef 100644 --- a/subworkflows/basecalling/dorado.nf +++ b/subworkflows/basecalling/dorado.nf @@ -11,7 +11,7 @@ params.EXTRAPARS_DEM = "" params.OUTPUT = "" params.OUTPUTMODE = "copy" params.MOP = "" -params.CONTAINER = "docker pull ontresearch/dorado:shae423e761540b9d08b526a1eb32faf498f32e8f22" +params.CONTAINER = "ontresearch/dorado:shae423e761540b9d08b526a1eb32faf498f32e8f22" params.GPU = "" params.DUPLEX = ""