Skip to main content

Creating multiple folders and subfolders


The task was to create a set of folders say 1,2,3,4 and in each of these four folders create four sub folders.
Thus 16 folders were to be created and in each of these 16 folders a common set of files were to be copied.
I used c shell scripting to do the job. I needed two lists. One list for primary folders

list1:
1
2
3
4

and another list for the subfolders.
list2:
5
6
7
8

It worked as:
-------------------

bash-3.2$ csh
r410comp2%
r410comp2%foreach f (`cat ../list1`)
foreach? echo $f
foreach? mkdir "$f"
foreach? cd "$f"
foreach? foreach g (`cat ../../list2`)
foreach? echo $g
foreach? mkdir "$f"_"$g"
foreach? cd "$f"_"$g"
foreach? cp /home/kjoshi/W/work/complex/2_ion/umbrella/6/6_75/u_6_75.in .
foreach? cp /home/kjoshi/W/work/complex/2_ion/umbrella/6/6_75/amber11_intel_ref_md .
foreach?cp /home/kjoshi/W/work/complex/2_ion/umbrella/6/6_75/2_ion.inpcrd .
foreach?cp /home/kjoshi/W/work/complex/2_ion/umbrella/6/6_75/2_ion.prmtop .
foreach?cp /home/kjoshi/W/work/complex/2_ion/umbrella/6/6_75/dist.RST .
foreach?cd ..
foreach?end
foreach?cd ..
foreach?end

---------------
Thus it created folders with names like
main folder : 4
subfolders: 4_5
            4_6
            4_7
            4_8

and so on for other main folders.
All these subfolders contain the required files copied from some location

I then had to rename a particular file in each of these subfolders in particular format.

File to be renamed :u_6_75.in
                         to:     u_4_5.in, u_4_6.in etc
So I did this:

-----------------

r410comp2% foreach f (`cat ../list1`)
foreach? echo $f
foreach? cd "$f"
foreach? foreach g (`cat ../../list2`)
foreach? echo $g
foreach? cd "$f"_"$g"
foreach? mv u_6_75.in u_"$f"_"$g".in
foreach? cd ..
foreach? end
foreach? cd ..
foreach? end
---------------

So these files were renamed as u_4_5.in, u_4_6.in etc.



Worth time saving

Comments

Popular posts from this blog

Material Studio - selective molecule movement

So, working with Material Studio is awesome. You get to handle bigger, complicated and even unimaginable system. But I am facing problems in very minute functioning. I recently faced two problems, but managed to resolve on my own. Somehow, tutorials doesn't help in resolving them and you end up doing some exercise on your own to get the solution. Among these, the problem of bringing two molecular structures in one window and then adjusting one molecule by moving it around, while other structure remains untouched, as it is. Actually, this should not be a problem to do. There is a simple way of doing this. Select the molecule to be moved and then there is a symbol (button) to select, which allows you to selectively move that molecule only. This is the same way it can be done in Material studio too.  But among all the dozens of symbols, the new person handling MS, kind of gets lost. So, what he does is check the tutorials, for any help. But the tutorials don't talk about suc...

Using Packmol

Packmol is a software that allows you to generate a single combined PDB file for all the molecules you are considering. It is a free software and can be downloaded from this link: http://www.ime.unicamp.br/~martinez/packmol/ The installation guide is also provided on the page and its really easy to follow. http://www.ime.unicamp.br/~martinez/packmol/ You can also find some examples but I tried on my own. Anyway what you need is an input file which looks like: ------------------ tolerance 2.0 output trial.pdb add_amber_ter filetype pdb structure 2a.pdb   number 1   inside cube 0. 0. 0. 10. end structure structure 2d.pdb   number 1   inside cube 0. 0. 0. 10. end structure --------------------------------- IT includes some information like: how close the molecules considered can be.(tolerance) name of output pdb file "add_amber_ter" adds term "TER" after every molecule thus defining the start and end of every molecule. After mentioning the...

COVID-19 Projections -till 22nd July

How would you call the COVID-19 situation in India for the last week. In contrast to what I hear around, I would say, the situation in India is improving. Lets see the reasons why I feel so: - Recovery rate has gone up to 63%. So, there is almost 2/3rd chance of survival for every person getting infected by COVID - The mortality rate has now reduced down to ~2.5%, way down from 3.2% in a 10 days duration.This is happening because of more and more testing. Today's report said, we did record 3.2 lakh testing in a day. This implies that the possibility of death because of COVID-19 is getting low. It may mean,  most of the people around can do fine with a little low panic level. Of course, precautions are necessary, if you don't want to fall in that very low 2.5% mortality set. Coming down to numbers. I am happy to see that India deviated significantly from my mid-July projection of 10.25 lakhs. Good to see the lowered down number. This shows the kind of ...