STAR2.7.11b indexing BUG: next index is smaller than previous, EXITING

[hansong798]

Hello, I downloaded 'Homo_sapiens.GRCh38.dna.toplevel.fa' and 'Homo_sapiens.GRCh38.111.gtf' from Ensembl and ran STAR 2.7.11b to generate index file.
However, I met errors casting 'BUG: next index is smaller than previous, EXITING' many times.
This was the same with the fa and gtf file obtained from gencode.

time STAR
--runMode genomeGenerate
--genomeDir indexdir
--genomeFastaFiles Homo_sapiens.GRCh38.dna.toplevel.fa
--sjdbGTFfile Homo_sapiens.GRCh38.111.gtf
--sjdbOverhang 100

Also, when I adjust --genomeSAindexNbases 6, it throws same error.

Here is my free memory information and Log.out file (which I converted to txt file).

Logout.txt

What would be a problem?
Please need help.

[Alexander Dobin]

Hi @hansong798

please use "primary" fasta and gtf, "top-level" contains a lot of unnecessary sequences.