Hello everyone, I’m always “lucky” to catch all the kind of errors in my paths… I run star as I did in the past without many problems, but with this files I have a new issue.. it might be because the reads are too long? Does anybody dealt with this problem before?
STAR --genomeDir genome/Indexed_star/ --runThreadN 4 --readFilesIn /home/RNAseq/fastq_files/file.R1.fq --outFileNamePrefix mapping/star/file.R1. --outSAMattributes All --outSAMtype BAM SortedByCoordinate --quantMode GeneCounts --outFilterMismatchNmax 100 Apr 09 20:17:44 ..... started STAR run Apr 09 20:17:44 ..... loading genome Apr 09 20:19:42 ..... started mapping ReadAlignChunk_processChunks.cpp:171:processChunks EXITING because of FATAL ERROR in input reads: unknown file format: the read ID should start with @ or > Apr 09 20:19:43 ...... FATAL ERROR, exiting Segmentation fault (core dumped)
The read start with @ anyways, after trimming I woulnd't expect does N ..
@K00124:54:HTMMCBBXX:1:1101:8968:993 1:N:0:NCGTCC NGCATCTCAATTTGGAATCCATTAATTCATCAGGTTTTGCCTCTTTCCACACAGCTTCCATATCTGAAGTGTTTGGTGGAGCAAAAATA +
Thank you for help