I have a file like this
ATOM 3197 HD13 ILE 206 9.900 15.310 13.450 0.0196 1.4870
ATOM 3198 C ILE 206 10.870 16.560 17.500 0.8343 1.9080
ATOM 3199 OXT ILE 206 11.780 15.734 17.425 -0.8190 1.6612
ATOM 3200 O ILE 206 9.929 16.225 18.095 -0.8190 1.6612
I want to cut the second column, however when I use
cut -f1,3,4,5,6,7,8,9,10 filename
it doesn't work. Am I do something wrong?
This is because there are multiple spaces and cut can just handle them one by one.
You can start from the 5th position:
$ cut -d' ' -f 1,5- file
ATOM HD13 ILE 206 9.900 15.310 13.450 0.0196 1.4870
ATOM C ILE 206 10.870 16.560 17.500 0.8343 1.9080
ATOM OXT ILE 206 11.780 15.734 17.425 -0.8190 1.6612
ATOM O ILE 206 9.929 16.225 18.095 -0.8190 1.6612
Or squeeze spaces with tr -s like below (multiple spaces will be lost, though):
$ tr -s ' ' < file | cut -d' ' -f1,3,4,5,6,7,8,9,10
ATOM HD13 ILE 206 9.900 15.310 13.450 0.0196 1.4870
ATOM C ILE 206 10.870 16.560 17.500 0.8343 1.9080
ATOM OXT ILE 206 11.780 15.734 17.425 -0.8190 1.6612
ATOM O ILE 206 9.929 16.225 18.095 -0.8190 1.6612
Note you can indicate from 3 to the end with 3-:
tr -s ' ' < file | cut -d' ' -f1,3-
In fact I would use awk for this:
awk '{$2=""; print}' file
or just
awk '{$2=""} 1' file