o Df @sdZddlmZddlmZmZmZddlmZ ddl m Z m Z m Z dded eed efd d Zdded eed efd dZddeded eefddZ ddededed eeeeffddZdS)z(Chunked reading of FASTA and FASTQ files) RawIOBase)OptionalIteratorTuple)paired_fastq_heads)FileFormatErrorFastaFormatErrorUnknownFileFormatNbufendreturncCs>|dd|}|dkr|dS|dddkrdStddd) z Search for the end of the last complete FASTA record within buf[:end] Return an integer length such that buf[:length] contains the highest possible number of complete FASTA records. s >rr>zFile does not start with ">"Nline)rfindr )r r posrU/var/www/html/software/conda/envs/catlas/lib/python3.10/site-packages/dnaio/chunks.py _fasta_head s  rcCs>|dd|}|}t|ddD] }|dd|}q|dS)z Search for the end of the last complete *two* FASTQ records in buf[:end]. Two FASTQ records are required to ensure that read pairs in interleaved paired-end data are not split.  rr)countranger)r r Z linebreaksright_rrr _fastq_heads r@f buffer_sizeccs6t|}|t|dd}|dkr|dddkrt}n!|dkr6|dddks3|dddkr6t}n |dkrs$  ;