How to move download sra file in command line

Note that prefetch will download your files to the directory you specified in Step 2. If you have lots of accessions in SraAccList. As you can see above, fasterq-dump splits. Also, note that the command outputs to your current working directory unless otherwise specified.

Hot tip! You can skip the prefetch step for single runs by leaving off the. Done and done! Note: the old fastq-dump is being deprecated. For example, on Helix, the interactive data transfer system, you can download as in the example below.

To download on Biowulf, don't run on the Biowulf login node ; use a batch job or interactive job instead. Submitting a single batch job 1. Create a script file similar to the one below. If you do not allocate local disk and use the -t flag, the temporary files will be written to the current working directory. It is more efficient for your job and for the system as a whole if you use local disk.

Because of this, users with data located on GPFS filesystems will see significant slowdowns in their jobs. Viewed 8k times. Improve this question. Add a comment. Active Oldest Votes. Improve this answer. Kai Fung Kai Fung 11 1 1 bronze badge. Geo Vogler Geo Vogler 3 1 1 bronze badge. The text file can be any list of accessions, separated by return. Tested in Bash. Kostas Pildish Kostas Pildish 1 1 1 bronze badge. Id like to create a script to move files of a size between let say — MB from a specific location to another location.

Hey I would like to know how to move a folder or move files to a folder while naming the folder to Program Files and on the Desktop. I have a batch scrip that creates a sql dump then copies it to another server.

The script that works with just copying it is below anyone have any thoughts on how to modify this? Hi, could you please help! I keep getting a The filename, directory name, or volume label syntax is incorrect error. Hi, Can anyone help me to move the files from multiple folders to multiple folders? Example: I have folders like folder1 and in folder1 I have file1 and file and folder2 in folder2 I have file 3 and file and the destination folders are folder 3 and folder4.