STAR-fusion: preparing the human genome resource lib

Question

[kkatoibaraki]

I am analyzing leukemia samples to detect novel fusion gene using STAR-fusion. I tried to execute STAR-fusion using "GRCh38_gencode_v33_CTAT_lib_Apr062020.plug-n-play" as reference resource genome library downloaded from CTAT resource genome lib website. However, it did not work well and alerted me "EXITING because of FATAL ERROR: Genome version: 2.7.1a is INCOMPATIBLE with running STAR version: 2.7.6a SOLUTION: please re-generate genome from scratch with running version of STAR, or with version: 2.7.4a".

Therefore I tried to build reference resource genome library for STAR-fusion according to STAR-fusion Wiki on GitHub, as follows:

$STAR_FUSION_HOME/ctat-genome-lib-builder/prep_genome_lib.pl \ --genome_fa ref_genome.fa \ --gtf gencode..annotation.gtf \ --fusion_annot_lib fusion_lib..dat.gz \ --annot_filter_rule AnnotFilterRule.pm \ --pfam_db current \ --dfam_db human \ --human_gencode_filter

However, this command returned the alert "bash: /ctat-genome-lib-builder/prep_genome_lib.pl: no such file or directory"

The command "echo $STAR_FUSION_HOME" did not tell me PATH to STAR_FUSION.

I would like to know how to build reference resource genome library for STAR-fusion ver 2.7.6a.

[brunobsouzaa]

Please, format you text. Use ctrl+k to insert your codes in this format

[brunobsouzaa]

Have you declared your $STAR_FUSION_HOME?