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Post Posted: October 29th, 2012, 3:34 pm

Zealous wrote:
If you can get it working on linux using bash would be something like this
Code: [ Select ]
for fn in *.sra
../bin64/fastq-dump $fn
  1. for fn in *.sra
  2. do
  3. ../bin64/fastq-dump $fn
  4. done

Any equivalents to bash on windows? I am not setup to run linux or bash. Not sure where to even start with that.

Post Posted: October 29th, 2012, 1:57 pm

Hi Guys, I would like to run fastq-dump (software from the NIH that changes the format of DNA sequencing data) and repeat it (when the last process is complete) until all the .sra files in a directory are reformatted to fastq. I have downloaded a study and the sra files are organize in a series of f...
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