Hi,
I've been unsuccessfully playing around with the sra toolkit (2.1.9), to extract simple SRA files to fastq. I've tried several recent sra files, but among them:
this returns the following error message (-L 5 is just to have more messages):
I've tried on a Linux 64 bit (compiled from source) and with the macOSX compiled version. Same error.
Any ideas? Am I doing something wrong?
I've been unsuccessfully playing around with the sra toolkit (2.1.9), to extract simple SRA files to fastq. I've tried several recent sra files, but among them:
Code:
fastq-dump SRR341556.lite.sra -L 5
Code:
2012-02-08T09:23:33 fastq-dump.2.1.9 warn: column not found while opening table within short read archive module - column LABEL 2012-02-08T09:23:33 fastq-dump.2.1.9 warn: column not found while opening table within short read archive module - column LABEL_START 2012-02-08T09:23:33 fastq-dump.2.1.9 warn: column not found while opening table within short read archive module - column LABEL_LEN 2012-02-08T09:23:33 fastq-dump.2.1.9 warn: column not found while opening table within short read archive module - column LABEL 2012-02-08T09:23:33 fastq-dump.2.1.9 warn: column not found while opening table within short read archive module - column LABEL_START 2012-02-08T09:23:33 fastq-dump.2.1.9 warn: column not found while opening table within short read archive module - column LABEL_LEN 2012-02-08T09:23:33 fastq-dump.2.1.9 err: table not found while opening table within alignment module module - failed SRR341556.lite.sra Written 0 spots total
Any ideas? Am I doing something wrong?
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