Open jolo2486 opened 1 year ago
First, delete the previous generated index file dp3.fa.gz.fxi, and then use pyfastx.Fasta to reindex it. If this does not work, please let me known.
Still fails.
The issue persists, even after deleting the index file (fxi
file)
curl https://s3-us-west-2.amazonaws.com/human-pangenomics/T2T/CHM13/assemblies/analysis_set/chm13v2.0.fa.gz -O
.
It seems to be related to the index though:
import pyfastx; pyfastx.Fasta("chm13v2.0.fa.gz", build_index=False)
works, but
import pyfastx; pyfastx.Fasta("chm13v2.0.fa.gz")
does not.
I am using pyfastx version 1.1.0
When loading e.g. the below gzipped fasta file: hgdownload.cse.ucsc.edu/goldenPath/dp3/bigZips/dp3.fa.gz
I get:
I am in a conda environment, and installed pyfastx 0.9.1 using pip.