I'm trying to run mirdeep2.pl
Command I use is following:
miRDeep2.pl reads_collapsed.fa Lusitatissimum_200_BGIv1.0.fa SRR8582417.arf none none none
1) reads_collapsed.fa file was created with SAM to ARF built-in mirdeep2 converter and has the following content:
>seq_1_x1 CTTATAGTGTAAGGTGGAATGAAG >seq_2_x1 ATGTCACCGAGTCTGTTACGCAAT >seq_3_x2 AGGGAAGAAGAACTAATATTTG .......
2) Lusitatissimum_200_BGIv1.0.fa is my reference genome
3) SRR8582417.arf was generated with converter as well
miRDeep2 starts to run, but then it crashes with the error:
> #testing input files > #testing input files sanity_check_reads_ready_file.pl reads_collapsed.fa > > started: 23:31:07 Error: problem with reads_collapsed.fa Error in line > 434.802: Either the sequence contains less than 17 characters or contains characters others than [acgtunACGTUN] > > Please make sure that your file only comprises sequences that have at > least 17 characters > > containing letters [acgtunACGTUN]
Both statements are false actually and alll files are in the working directory What's the problem?