Hi there, I'm using samtools 1.2, when I try to run this command: samtools mpileup -B -f hg19.fasta file1.bam file2.bam file3.bam > cohort.mpileup
I have the following error: [fai_load] fail to open FASTA file. After that, I tried to use the same command on reference chr1.fa (from ucsc hg19) and it works perfectly. I downloaded ucsc.hg19.fasta already indexed and I tried to build index again but faidx command doesn't work on hg19.fasta reference and I have the following error: [fai_build] fail to open the FASTA file path_to/ucsc.hg19.fasta Do you have any idea? Why this command works perfectly on chr1.fa but not on the entire reference.fasta? Thank you for your help, Matteo
------------------------------------------------------------------------------
_______________________________________________ Samtools-help mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/samtools-help
