应该如何解决？代码与报错如下，数据来源：ncbi的参考基因组注释文件。

/share/work/biosoft/TransDecoder/latest/util/gff3_file_to_proteins.pl  --gff3  $species.longest_isoform.gff3 --fasta $genome  --seqType CDS >$species.cds.fa
#提取pep序列
/share/work/biosoft/TransDecoder/latest/util/gff3_file_to_proteins.pl  --gff3  $species.longest_isoform.gff3  --fasta  $genome --seqType prot >$species.pep.fa

报错如下：

1. No such file or directory at /share/work/biosoft/TransDecoder/TransDecoder-v5.5.0/util/../PerlLib/GFF3_utils2.pm line 40, <$filehandle> line 3167.
   No such file or directory at /share/work/biosoft/TransDecoder/TransDecoder-v5.5.0/util/../PerlLib/GFF3_utils2.pm line 40, <$filehandle> line 3167.