Hi All,
I just have a general question for everyone who regularly uses command line blast with '-remote' i.e. using NCBI online databases. I'm using BLAST 2.6.0+ and I consistently get errors that are related to the NCBI server.. busy, overload, query too big, too many queries.. e.g. below. But the errors are random and its difficult to script repeating a failed blast when its seemingly random and can take a long time before it even errors.
I think these problems have been getting worse and NCBI only tells me to use the browser version or submit fewer / smaller jobs (LOL).
So just wondering what others' thoughts are? I think I'll have to give up and download a local copy of the dbs.
Thanks,
S.
example:
Error: (308.5) [blastn] [blast4] Service not found
Error: (315.2) [blastn] CConn_Streambuf::CConn_Streambuf(): NULL connector: Unknown
Error: (308.5) [blastn] [blast4] Service not found
Error: (315.2) [blastn] CConn_Streambuf::CConn_Streambuf(): NULL connector: Unknown
Error: (802.5) [blastn] CObjectOStream: error at byte 52: stack is empty: write fault
Error: (802.5) [blastn] CObjectOStream: error at byte 0: stack is empty: cannot close output stream
Error: (CIOException::eFlush) [blastn] COStreamBuffer::Flush: failed
Error: (CSerialException::eIoError) [blastn] byte 0: cannot close output stream
Error: (802.4) [blastn] Cannot close serializing output stream (CSerialException::eIoError) byte 0: cannot close output stream
but lots of others too..
I just have a general question for everyone who regularly uses command line blast with '-remote' i.e. using NCBI online databases. I'm using BLAST 2.6.0+ and I consistently get errors that are related to the NCBI server.. busy, overload, query too big, too many queries.. e.g. below. But the errors are random and its difficult to script repeating a failed blast when its seemingly random and can take a long time before it even errors.
I think these problems have been getting worse and NCBI only tells me to use the browser version or submit fewer / smaller jobs (LOL).
So just wondering what others' thoughts are? I think I'll have to give up and download a local copy of the dbs.
Thanks,
S.
example:
Error: (308.5) [blastn] [blast4] Service not found
Error: (315.2) [blastn] CConn_Streambuf::CConn_Streambuf(): NULL connector: Unknown
Error: (308.5) [blastn] [blast4] Service not found
Error: (315.2) [blastn] CConn_Streambuf::CConn_Streambuf(): NULL connector: Unknown
Error: (802.5) [blastn] CObjectOStream: error at byte 52: stack is empty: write fault
Error: (802.5) [blastn] CObjectOStream: error at byte 0: stack is empty: cannot close output stream
Error: (CIOException::eFlush) [blastn] COStreamBuffer::Flush: failed
Error: (CSerialException::eIoError) [blastn] byte 0: cannot close output stream
Error: (802.4) [blastn] Cannot close serializing output stream (CSerialException::eIoError) byte 0: cannot close output stream
but lots of others too..
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