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humanlongevity / HLA

xHLA: Fast and accurate HLA typing from short read sequence data
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is this a bug or something wrong with my test data? #17

Closed zd200572 closed 6 years ago

zd200572 commented 6 years ago

I use this software according to the article, and I got this error: Extracting reads from S3 skipped 98412 duplicated reads Aligning reads to IMGT database processing FASTQ file found 151748 reads processing MSA file found 26381 HLA exons processing FASTQ file terminate called after throwing an instance of 'std::bad_alloc' what(): std::bad_alloc matched to 0 HLA exons 0 reads matched to HLA types not in the MSA file translating matches to MSA Typing Error in fread(align.path) : File is empty: hla-1c/1c.tsv Execution halted Traceback (most recent call last): File "/opt/bin/run.py", line 64, in check_call(bin_args) File "/usr/lib/python2.7/subprocess.py", line 540, in check_call raise CalledProcessError(retcode, cmd) subprocess.CalledProcessError: Command '['/opt/bin/typer.sh', 'HLA-1-clean_sorted.bam', '1c']' returned non-zero exit status 1

zd200572 commented 6 years ago

I baidu the error innfo and know it is the out range of my ram.