Question: bowtie2-build error: Could not open index file for writing
0
gravatar for wintergb
2.7 years ago by
wintergb10
wintergb10 wrote:

I was running bowtie2-build and encountered the following error. Thanks for help!

bowtie2-build final.contigs.fa final.contigs

Input files DNA, FASTA:

final.contigs.fa

Building a SMALL index

Reading reference sizes

Could not open index file for writing: "final.contigs.3.bt2"

Please make sure the directory exists and that permissions allow writing by Bowtie.

Time reading reference sizes: 00:00:00

Total time for call to driver() for forward index: 00:00:00

Error: Encountered internal Bowtie 2 exception (#1)

bowtie2 index • 1.8k views
ADD COMMENTlink modified 20 days ago by cristopher.biotec0 • written 2.7 years ago by wintergb10
1

Please make sure the directory exists and that permissions allow writing by Bowtie.

Are your running this in a directory where you have write permission?

ADD REPLYlink written 2.7 years ago by Brice Sarver2.5k

Yes I have write permission. I just figured out the reason. My disk is full. Thanks for help!

ADD REPLYlink written 2.7 years ago by wintergb10
0
gravatar for cristopher.biotec
20 days ago by
cristopher.biotec0 wrote:

Hi, I had the same problem. Bowtie2-build cannot create the folder, I created it and ran again without problems 'bowtie2-build ref.fna foldercreate / xxname'

ADD COMMENTlink written 20 days ago by cristopher.biotec0
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