Hey there, I am trying to map my fastq genome files using STAR. However, when I enter in my code, I get this:
EXITING: because of fatal INPUT ERROR: number of input files for mate3=1 is not equal to that for mate1=3 Make sure that the number of files in --readFilesIn is the same for both mates
Anybody have any clue on how to fix this? I believe I am annotating my read1/2 and samples correctly? Also, would anyone know how to set a directory for STAR so it finds my fastq files so I dont have to keep retyping it?
STAR --runThreadN 4 --genomeDir /genome_index --readFilesIn Users/mfaleeva/Desktop/Day30R1/ Day-30-R1_S1_L008_R1_001.fastq,Users/mfaleeva/Desktop/Day30R2/ Day-30-R2_S2_L008_R1_001.fastq,Users/mfaleeva/Desktop/Day30R3/ Day-30-R3_S3_L008_R1_001.fastq Users/mfaleeva/Desktop/Day30R1/ Day-30-R1_S1_L008_R2_001.fastq,Users/mfaleeva/Desktop/Day30R2/ Day-30-R2_S1_L008_R2_001.fastq,Users/mfaleeva/Desktop/Day30R3/ Day-30-R3_S1_L008_R2_001.fastq--outSAMattrRGline ID:Day30_R1 , ID:Day30_R2 , ID:Day30_R3