Hello,
I am trying to run the example data and I keep receiving an error during the "Run demultiplex by marker and truncate primer sequence" step.
dePlexMarker <- demultiplexByMarker(dePlexSample, markerTab, outDeplexMarker)
Processing marker csp
Processing file R-100_Rep2_BC_Fwd_01-Rev_10_R1.fastq.gz and R-100_Rep2_BC_Fwd_01-Rev_10_R2.fastq.gz
Processing file R-500_Rep2_BC_Fwd_02-Rev_10_R1.fastq.gz and R-500_Rep2_BC_Fwd_02-Rev_10_R2.fastq.gz
Processing file R-1000_Rep2_BC_Fwd_03-Rev_10_R1.fastq.gz and R-1000_Rep2_BC_Fwd_03-Rev_10_R2.fastq.gz
Processing file R-1500_Rep2_BC_Fwd_04-Rev_10_R1.fastq.gz and R-1500_Rep2_BC_Fwd_04-Rev_10_R2.fastq.gz
Processing file R-3000_Rep2_BC_Fwd_05-Rev_10_R1.fastq.gz and R-3000_Rep2_BC_Fwd_05-Rev_10_R2.fastq.gz
Processing file R-1_Rep2_BC_Fwd_06-Rev_09_R1.fastq.gz and R-1_Rep2_BC_Fwd_06-Rev_09_R2.fastq.gz
Processing file R-10_Rep2_BC_Fwd_07-Rev_09_R1.fastq.gz and R-10_Rep2_BC_Fwd_07-Rev_09_R2.fastq.gz
Processing file R-50_Rep2_BC_Fwd_08-Rev_09_R1.fastq.gz and R-50_Rep2_BC_Fwd_08-Rev_09_R2.fastq.gz
Processing file R-1_Rep1_BC_Fwd_13-Rev_22_R1.fastq.gz and R-1_Rep1_BC_Fwd_13-Rev_22_R2.fastq.gz
Processing file R-10_Rep1_BC_Fwd_14-Rev_22_R1.fastq.gz and R-10_Rep1_BC_Fwd_14-Rev_22_R2.fastq.gz
Processing file R-50_Rep1_BC_Fwd_15-Rev_22_R1.fastq.gz and R-50_Rep1_BC_Fwd_15-Rev_22_R2.fastq.gz
Processing file R-100_Rep1_BC_Fwd_16-Rev_22_R1.fastq.gz and R-100_Rep1_BC_Fwd_16-Rev_22_R2.fastq.gz
Processing file R-500_Rep1_BC_Fwd_17-Rev_22_R1.fastq.gz and R-500_Rep1_BC_Fwd_17-Rev_22_R2.fastq.gz
Processing file R-1000_Rep1_BC_Fwd_18-Rev_22_R1.fastq.gz and R-1000_Rep1_BC_Fwd_18-Rev_22_R2.fastq.gz
Processing file R-1500_Rep1_BC_Fwd_19-Rev_22_R1.fastq.gz and R-1500_Rep1_BC_Fwd_19-Rev_22_R2.fastq.gz
Processing file R-3000_Rep1_BC_Fwd_20-Rev_22_R1.fastq.gz and R-3000_Rep1_BC_Fwd_20-Rev_22_R2.fastq.gz
Processing marker cpmp
Processing file R-100_Rep2_BC_Fwd_01-Rev_10_R1.fastq.gz and R-100_Rep2_BC_Fwd_01-Rev_10_R2.fastq.gz
Error in h(simpleError(msg, call)) :
error in evaluating the argument 'args' in selecting a method for function 'do.call': error in evaluating the argument 'args' in selecting a method for function 'do.call': UserArgumentMismatch
file 'exampleHaplotypR/dePlexMarker/R-100_Rep2_BC_Fwd_01-Rev_10_R1.fastq.gz_F.fastq.gz' exists, but mode is not 'a'
Hello,