Please help me, 'error encountered internal bowtie 2 exception (#1)'

Question

[samnatha1108]

Hi, everyone. I have some problem.. :(

/usr/bin/bowtie2-align-s --wrapper basic-0 -x chr8.fa -S bowtie2.sam ExomeSeq_1.fastq.gz ExomeSeq_2.fastq.gz Extra parameter(s) specified: "ExomeSeq_2.fastq.gz" Error: Encountered internal Bowtie 2 exception (#1) Command: /usr/bin/bowtie2-align-s --wrapper basic-0 -x chr8.fa -S bowtie2.sam ExomeSeq_1.fastq.gz ExomeSeq_2.fastq.gz

what's the problem? and what mean 'Encountered internal Bowtie 2 exception (#1)' ??

Thank you for read.

Answer 1

[Devon Ryan]

You probably meant bowtie2 -x chr8.fa -S bowtie2.sam -1 ExomeSeq_1.fastq.gz -2 ExomeSeq_2.fastq.gz or something like that. An "internal exception" is an error internal to the program.

[samnatha1108]

thank you for help me..!!