How to rename multiple file name

Question

[Bioinfonext]

Hi I want to rename multiple file:

Old File Name is like this:

 SRR4104645_1.fastq          SRR4104648_1.fastq

SRR4104645_2.fastq           SRR4104648_2.fastq

New File name should be like this:

SRR4104645_R1.fastq                          SRR4104648_R1.fastq

SRR4104645_R2.fastq                         SRR4104648_R2.fastq

[h.mon]

There are dozens of answers out there:

https://stackoverflow.com/questions/30582799/how-do-you-mass-rename-files-in-linux

https://stackoverflow.com/questions/208181/how-to-rename-with-prefix-suffix

https://stackoverflow.com/questions/45688086/unix-renaming-files

https://unix.stackexchange.com/questions/98070/rename-files-in-directory

https://stackoverflow.com/questions/32038673/file-renaming-linux

[Arup Ghosh]

Do you want to add R in all the sample names?

[Bioinfonext]

Yes arup, I only need to add R...

Answer 1

[venu]

Try this

rename '_' '_R' *fastq

P.S. I didn't test this but it should work.

EDIT: Check this. There seem to be different versions of rename command. I use the above version. Another one seems to be following sed kind of syntax.

[Bioinfonext]

Thanks, Its correct!

Answer 2

[Paul]

Hi,

this pure bash solution works too:

for i in *1.fastq; do mv $i ${i%_1.fastq}_R1.fastq; done && for i in *2.fastq; do mv $i ${i%_2.fastq}_R2.fastq; done

Just copy and paste to your terminal and it should rename all file.

[st.ph.n]

for file in *.fastq; do mv -v $file ${file/_/_R}; done should be sufficient.