I created a Bowtie index for the Ensembl 78 human genome ( from one file, containing regular chromosomes as well as haplotypes (HSCHR) as patches. This resulted in the following index files:
However when I try to run bowtie using this index, I get the following error:
Could not locate a Bowtie index corresponding to basename "large_idx/lib"
I am 99.99% sure that the provided directory is the correct location of the index.
For debugging purpose, I tried to create both a small and a large index starting from the same (small) fasta-file (using the '--large-index' option for creating the large index).
Used Bowtie version: 1.1.1
I created a Bowtie index for the Ensembl 78 human genome ( from one file, containing regular chromosomes as well as haplotypes (HSCHR) as patches. This resulted in the following index files:
However when I try to run bowtie using this index, I get the following error:
I am 99.99% sure that the provided directory is the correct location of the index.
For debugging purpose, I tried to create both a small and a large index starting from the same (small) fasta-file (using the '--large-index' option for creating the large index).
These files are in the small index:
And these files are in the large index:
Running bowtie on the small index succeeded, using the large index failed again with the same error message describe above.
Am I missing something here or is bowtie 1.1.1 unable to run using a large index?
Last edit: mluypaert 2015-03-31