Question: Help With Sam To Bam
gravatar for Zachary A Lewis
7.2 years ago by
Zachary A Lewis10 wrote:
Hi, I was wondering if someone could help me with an error message I'm getting after performing a sam to bam conversion in galaxy. I've used Bowtie to map sequence reads to a custom fasta file corresponding to one chromosome in my organism. The mapping seems to work fine, but when I attempt a sam to bam conversion, I receive the folowing error message: An error occurred running this job: Samtools Version: 0.1.12 (r862) Error creating indexes from reference (/galaxy/main_database/files/002/977/dataset_2977193.dat), [fai_build_core] line length exceeds 65535 in sequence 'LGVII'. Segmentation fault Any help would be appreciated. Thanks, Zack
alignment bowtie samtools bam • 1.5k views
ADD COMMENTlink modified 7.2 years ago by Austin Paul140 • written 7.2 years ago by Zachary A Lewis10
gravatar for Austin Paul
7.2 years ago by
Austin Paul140
Austin Paul140 wrote:
You could try "fasta width formatter" on your reference fasta. This has helped me in the past when I received a similar error.
ADD COMMENTlink written 7.2 years ago by Austin Paul140
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