I am trying to download few SRA files from NCBI SRA database using SRAtoolkit. The command I am running is
fastq-dump --origfmt --gzip --split-files --accession SRR447946
But after a while of running (downloading), it gives an error:
============================================================= An error occurred during processing. A report was generated into the file '/home/arnstrm/ncbi_error_report.xml'. If the problem persists, you may consider sending the file to 'email@example.com' for assistance. ============================================================= 2014-10-20T16:04:57 fastq-dump.2.3.4 err: file descriptor invalid while constructing file within file system module - curl_easy_perform( FileRead, 1057095680.131072 ) failed with curl-error 'CURLE_COULDNT_CONNECT' (7) 2014-10-20T16:05:08 fastq-dump.2.3.4 err: file descriptor invalid while constructing file within file system module - curl_easy_perform( FileRead, 234749952.131072 ) failed with curl-error 'CURLE_OPERATION_TIMEDOUT' (28) 2014-10-20T16:05:08 fastq-dump.2.3.4 err: buffer insufficient while executing function within transform module - failed SRR447946
Does anyone know what is the problem here? Quick Google search didn't find any solutions.
Thanks for any help!