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Created July 28, 2016 15:56
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Errors with fastq-dump
((py3k)) [obotvinnik@tscc-login2 fastq_dump]$ fastq-dump --gzip --split-files /oasis/tscc/scratch/obotvinnik/external_singlecell/tasic2015/1645630/SRR2140205.sra --outdir /oasis/tscc/scratch/obotvinnik/external_singlecell/tasic2015/1645630/
2016-07-28T15:53:29 fastq-dump.2.5.4 err: name not found while resolving tree within virtual file system module - failed /oasis/tscc/scratch/obotvinnik/external_singlecell/tasic2015/1645630/SRR2140205.sra
=============================================================
An error occurred during processing.
A report was generated into the file '/home/obotvinnik/ncbi_error_report.xml'.
If the problem persists, you may consider sending the file
to '[email protected]' for assistance.
=============================================================
((py3k)) [obotvinnik@tscc-login2 fastq_dump]$ cd /oasis/tscc/scratch/obotvinnik/external_singlecell/tasic2015/1645630/
((py3k)) [obotvinnik@tscc-login2 1645630]$ ls
SRR2140205_1.fastq.gz SRR2140205.fastq SRR2140205.sra
((py3k)) [obotvinnik@tscc-login2 1645630]$ ll
total 617M
-rw-r--r-- 1 obotvinnik yeo-group 232 Jul 28 08:53 SRR2140205_1.fastq.gz
-rw-r--r-- 1 obotvinnik yeo-group 453M Jun 24 20:41 SRR2140205.fastq
-rw-r--r-- 1 obotvinnik yeo-group 428M Jun 18 12:20 SRR2140205.sra
((py3k)) [obotvinnik@tscc-login2 1645630]$ fastq-dump --gzip --split-files SRR2140205.sra
2016-07-28T15:54:04 fastq-dump.2.5.4 err: name not found while resolving tree within virtual file system module - failed SRR2140205.sra
=============================================================
An error occurred during processing.
A report was generated into the file '/home/obotvinnik/ncbi_error_report.xml'.
If the problem persists, you may consider sending the file
to '[email protected]' for assistance.
=============================================================
((py3k)) [obotvinnik@tscc-login2 1645630]$ fastq-dump --gzip --split-files -A SRR2140205.sra
2016-07-28T15:54:13 fastq-dump.2.5.4 err: name not found while resolving tree within virtual file system module - failed SRR2140205.sra
=============================================================
An error occurred during processing.
A report was generated into the file '/home/obotvinnik/ncbi_error_report.xml'.
If the problem persists, you may consider sending the file
to '[email protected]' for assistance.
=============================================================
((py3k)) [obotvinnik@tscc-login2 1645630]$ fastq-dump --gzip --split-files -A ./SRR2140205.sra
2016-07-28T15:55:27 fastq-dump.2.5.4 err: name not found while resolving tree within virtual file system module - failed ./SRR2140205.sra
=============================================================
An error occurred during processing.
A report was generated into the file '/home/obotvinnik/ncbi_error_report.xml'.
If the problem persists, you may consider sending the file
to '[email protected]' for assistance.
=============================================================
((py3k)) [obotvinnik@tscc-login2 1645630]$ fastq-dump --gzip --split-files ./SRR2140205.sra
2016-07-28T15:55:31 fastq-dump.2.5.4 err: name not found while resolving tree within virtual file system module - failed ./SRR2140205.sra
=============================================================
An error occurred during processing.
A report was generated into the file '/home/obotvinnik/ncbi_error_report.xml'.
If the problem persists, you may consider sending the file
to '[email protected]' for assistance.
=============================================================
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