gravatar for mhmtgenc85

2 hours ago by

Turkey

Hi everyone,

We have NextSeq 500 instrument that we used to sequence our samples. And as you know we get bcl files and need to use bcl2fastq to convert images to fastq format. I have already used it a hundred times before but this time I get this error;

.
.
.
2020-10-09 15:38:50 [7fb818ed1700] INFO: Opened BCL file '/run/user/1000/gvfs/smb-share:server=192.168.1.129,share=e/1_NextSeq/2020_NextSeq/201007_NB501313_0125_AH5N53BGXF/Data/Intensities/BaseCalls/L001/0318.bcl.bgzf' with 0 clusters
2020-10-09 15:39:01 [7fb80beb7700] ERROR: Thread: 3 caught an exception first: /home/shahlab/miniconda2/conda-bld/bcl2fastq_1497316272077/work/bcl2fastq/src/cxx/lib/io/SyncFile.cpp(166): Throw in function virtual void bcl2fastq::io::UnprocessedFile::logError(std::streamsize, std::streamsize) const
Dynamic exception type: boost::exception_detail::clone_impl **bcl2fastq::common::InputDataError**
std::exception::what: Synchronized file '/run/user/1000/gvfs/smb-share:server=192.168.1.129,share=e/1_NextSeq/2020_NextSeq/201007_NB501313_0125_AH5N53BGXF/Data/Intensities/BaseCalls/L001/0317.bcl.bgzf' truncated: bytes_read=183934 bytes_expected=228035
terminate called after throwing an instance of 'boost::exception_detail::clone_impl<bcl2fastq::common::InputDataError>'
  what():  Synchronized file '/run/user/1000/gvfs/smb-share:server=192.168.1.129,share=e/1_NextSeq/2020_NextSeq/201007_NB501313_0125_AH5N53BGXF/Data/Intensities/BaseCalls/L001/0317.bcl.bgzf' **truncated: bytes_read=183934 bytes_expected=228035**
**Aborted (core dumped)**

So how can I solve this?

Thanks in advance



Source link