Sed operations are not working or might i am doing it wrong?Working with columns - awk and sedUsing sed/awk...
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Sed operations are not working or might i am doing it wrong?
Working with columns - awk and sedUsing sed/awk to remove anything after first spaceSeparating names separated by “| character” to individual pairsRemove the multiple comma's from specific column of tab delimited fileand print the words on new lineAWK/SED Remove a specific latex command from the text AND closing bracket behind itRemove a specific latex command from the text AND closing bracket behind itHow can i print unique value of particular column and then print rest of the columns in next lineWhy might sed not make any change to a file?How to delete whitespaces in columns?Using NF with FPAT – what am I doing wrong?
.everyoneloves__top-leaderboard:empty,.everyoneloves__mid-leaderboard:empty,.everyoneloves__bot-mid-leaderboard:empty{ margin-bottom:0;
}
input: text:
chrX_143483005-chr6_103649292,chrX_143483110-chr6_103649131 chrX_143483110-chr_6103649147 chrX_143483004-chr6_103649293,chrX_143483110-chr6_103649291,chrX_143483110-chr6_103649053
chrX_143483110-chr_6103649147 chrX_143483005-chr6_103649292,chrX_143483110-chr6_103649131 0
0 chrX_143483005-chr6_103649292,chrX_143483110-chr6_103649131 chrX_143482988-chr6_103649147,chrX_143483004-chr6_103649293,chrX_143483110-chr6_103649291,chrX_143483110-chr6_103649053
chrX_143483005-chr6_103649292,chrX_143483110-chr6_103649131 0 chrX_143483110-chr_6103649147
0 chrX_143483005-chr6_103649292,chrX_143483110-chr6_103649131 chrX_143482988-chr6_103649147,chrX_143483004-chr6_103649293,chrX_143483110-chr6_103649291,chrX_143483110-chr6_103649053
Desired output:
chrX_143483005-chr6_103649292 chrX_143483110-chr_6103649147 chrX_143483004-chr6_103649293
chrX_143483110-chr_6103649147 chrX_143483005-chr6_103649292 0
0 chrX_143483005-chr6_103649292 chrX_143482988-chr6_103649147
chrX_143483005-chr6_103649292 0 chrX_143483110-chr_6103649147
0 chrX_143483005-chr6_103649292 chrX_143482988-chr6_103649147
Tried:
## No. of Columns in each line.
awk '{print NF}' tt.txt
3
3
3
3
3
## operation to delete the co-ordinates affiliated with comma.
sed -e 's/,chr[A-Z0-9]_[0-9]-chr[A-Z0-9]_[0-9]*.//g' tt.txt
Basically I want to remove co-ordinates just after "," and want to keep only left hands (first one) co-ordinates.
NOTE:
1 In this operation, columns would be the same as input.
2. Comma sepratted co-ordinates are not fixed it can be any columns.
3. Chromosomes can any 1-19, X and Y.
linux awk sed
asked 3 hours ago
RupeshRupesh
184
add a comment |
input: text:
chrX_143483005-chr6_103649292,chrX_143483110-chr6_103649131 chrX_143483110-chr_6103649147 chrX_143483004-chr6_103649293,chrX_143483110-chr6_103649291,chrX_143483110-chr6_103649053
chrX_143483110-chr_6103649147 chrX_143483005-chr6_103649292,chrX_143483110-chr6_103649131 0
0 chrX_143483005-chr6_103649292,chrX_143483110-chr6_103649131 chrX_143482988-chr6_103649147,chrX_143483004-chr6_103649293,chrX_143483110-chr6_103649291,chrX_143483110-chr6_103649053
chrX_143483005-chr6_103649292,chrX_143483110-chr6_103649131 0 chrX_143483110-chr_6103649147
0 chrX_143483005-chr6_103649292,chrX_143483110-chr6_103649131 chrX_143482988-chr6_103649147,chrX_143483004-chr6_103649293,chrX_143483110-chr6_103649291,chrX_143483110-chr6_103649053
Desired output:
chrX_143483005-chr6_103649292 chrX_143483110-chr_6103649147 chrX_143483004-chr6_103649293
chrX_143483110-chr_6103649147 chrX_143483005-chr6_103649292 0
0 chrX_143483005-chr6_103649292 chrX_143482988-chr6_103649147
chrX_143483005-chr6_103649292 0 chrX_143483110-chr_6103649147
0 chrX_143483005-chr6_103649292 chrX_143482988-chr6_103649147
Tried:
## No. of Columns in each line.
awk '{print NF}' tt.txt
3
3
3
3
3
## operation to delete the co-ordinates affiliated with comma.
sed -e 's/,chr[A-Z0-9]_[0-9]-chr[A-Z0-9]_[0-9]*.//g' tt.txt
Basically I want to remove co-ordinates just after "," and want to keep only left hands (first one) co-ordinates.
NOTE:
1 In this operation, columns would be the same as input.
2. Comma sepratted co-ordinates are not fixed it can be any columns.
3. Chromosomes can any 1-19, X and Y.
linux awk sed
asked 3 hours ago
RupeshRupesh
184
1
Please, save a cat's life. Rather thancat file | sed 'thing', simplysed 'thing' file.
– DopeGhoti
3 hours ago
add a comment |
input: text:
chrX_143483005-chr6_103649292,chrX_143483110-chr6_103649131 chrX_143483110-chr_6103649147 chrX_143483004-chr6_103649293,chrX_143483110-chr6_103649291,chrX_143483110-chr6_103649053
chrX_143483110-chr_6103649147 chrX_143483005-chr6_103649292,chrX_143483110-chr6_103649131 0
0 chrX_143483005-chr6_103649292,chrX_143483110-chr6_103649131 chrX_143482988-chr6_103649147,chrX_143483004-chr6_103649293,chrX_143483110-chr6_103649291,chrX_143483110-chr6_103649053
chrX_143483005-chr6_103649292,chrX_143483110-chr6_103649131 0 chrX_143483110-chr_6103649147
0 chrX_143483005-chr6_103649292,chrX_143483110-chr6_103649131 chrX_143482988-chr6_103649147,chrX_143483004-chr6_103649293,chrX_143483110-chr6_103649291,chrX_143483110-chr6_103649053
Desired output:
chrX_143483005-chr6_103649292 chrX_143483110-chr_6103649147 chrX_143483004-chr6_103649293
chrX_143483110-chr_6103649147 chrX_143483005-chr6_103649292 0
0 chrX_143483005-chr6_103649292 chrX_143482988-chr6_103649147
chrX_143483005-chr6_103649292 0 chrX_143483110-chr_6103649147
0 chrX_143483005-chr6_103649292 chrX_143482988-chr6_103649147
Tried:
## No. of Columns in each line.
awk '{print NF}' tt.txt
3
3
3
3
3
## operation to delete the co-ordinates affiliated with comma.
sed -e 's/,chr[A-Z0-9]_[0-9]-chr[A-Z0-9]_[0-9]*.//g' tt.txt
Basically I want to remove co-ordinates just after "," and want to keep only left hands (first one) co-ordinates.
NOTE:
1 In this operation, columns would be the same as input.
2. Comma sepratted co-ordinates are not fixed it can be any columns.
3. Chromosomes can any 1-19, X and Y.
linux awk sed
asked 3 hours ago
RupeshRupesh
184
input: text:
chrX_143483005-chr6_103649292,chrX_143483110-chr6_103649131 chrX_143483110-chr_6103649147 chrX_143483004-chr6_103649293,chrX_143483110-chr6_103649291,chrX_143483110-chr6_103649053
chrX_143483110-chr_6103649147 chrX_143483005-chr6_103649292,chrX_143483110-chr6_103649131 0
0 chrX_143483005-chr6_103649292,chrX_143483110-chr6_103649131 chrX_143482988-chr6_103649147,chrX_143483004-chr6_103649293,chrX_143483110-chr6_103649291,chrX_143483110-chr6_103649053
chrX_143483005-chr6_103649292,chrX_143483110-chr6_103649131 0 chrX_143483110-chr_6103649147
0 chrX_143483005-chr6_103649292,chrX_143483110-chr6_103649131 chrX_143482988-chr6_103649147,chrX_143483004-chr6_103649293,chrX_143483110-chr6_103649291,chrX_143483110-chr6_103649053
Desired output:
chrX_143483005-chr6_103649292 chrX_143483110-chr_6103649147 chrX_143483004-chr6_103649293
chrX_143483110-chr_6103649147 chrX_143483005-chr6_103649292 0
0 chrX_143483005-chr6_103649292 chrX_143482988-chr6_103649147
chrX_143483005-chr6_103649292 0 chrX_143483110-chr_6103649147
0 chrX_143483005-chr6_103649292 chrX_143482988-chr6_103649147
Tried:
## No. of Columns in each line.
awk '{print NF}' tt.txt
3
3
3
3
3
## operation to delete the co-ordinates affiliated with comma.
sed -e 's/,chr[A-Z0-9]_[0-9]-chr[A-Z0-9]_[0-9]*.//g' tt.txt
Basically I want to remove co-ordinates just after "," and want to keep only left hands (first one) co-ordinates.
NOTE:
1 In this operation, columns would be the same as input.
2. Comma sepratted co-ordinates are not fixed it can be any columns.
3. Chromosomes can any 1-19, X and Y.
linux awk sed
linux awk sed
asked 3 hours ago
RupeshRupesh
184
asked 3 hours ago
RupeshRupesh
184
edited 3 hours ago
Rupesh
asked 3 hours ago
RupeshRupesh
184
asked 3 hours ago
RupeshRupesh
184
asked 3 hours ago
RupeshRupesh
184
184
1
Please, save a cat's life. Rather thancat file | sed 'thing', simplysed 'thing' file.
– DopeGhoti
3 hours ago
add a comment |
1
Please, save a cat's life. Rather thancat file | sed 'thing', simplysed 'thing' file.
– DopeGhoti
3 hours ago
1
1
Please, save a cat's life. Rather than
cat file | sed 'thing', simply sed 'thing' file.– DopeGhoti
3 hours ago
Please, save a cat's life. Rather than
cat file | sed 'thing', simply sed 'thing' file.– DopeGhoti
3 hours ago
add a comment |
1 Answer
1
active
oldest
votes
Simple enough:
$ sed -E 's/,[^ ]+//g' in
chrX_143483005-chr6_103649292 chrX_143483110-chr_6103649147 chrX_143483004-chr6_103649293
chrX_143483110-chr_6103649147 chrX_143483005-chr6_103649292 0
0 chrX_143483005-chr6_103649292 chrX_143482988-chr6_103649147
chrX_143483005-chr6_103649292 0 chrX_143483110-chr_6103649147
0 chrX_143483005-chr6_103649292 chrX_143482988-chr6_103649147
The (extended) regular expression /,[^ ]+/ will match any sequence of a comma followed series of characters which are not a space.
The sed command s will substutute any matches of the first argument (in this case, the given expression), with the second argument (in this case, nothing); the g option to the s command says to make that substitution for all matches found rather than merely the first.
answered 3 hours ago
DopeGhotiDopeGhoti
47.7k56194
awesome !! thanks Can you please explain, how its work?
– Rupesh
3 hours ago
Not working with this line: 0 chrX_143483005-chr6_103649292,chrX_143483110-chr6_103649131 chrX_143482988-chr6_103649147,chrX_143483004-chr6_103649293,chrX_143483110-chr6_103649291,chrX_143483110-chr6_103649053 it removes last column.
– Rupesh
3 hours ago
Looking at your edit, I seem to get the desired output with my given command.
– DopeGhoti
3 hours ago
Ok, now i get it. I have tab separated columns and here you are replacing "space", so i just added sed -E 's/,[^t]+//g' input. its working now thanks for your gentle reply
– Rupesh
3 hours ago
You could even handle tabs and spaces with/,[^ t]+/(:
– DopeGhoti
3 hours ago
add a comment |
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1 Answer
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1 Answer
1
active
oldest
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active
oldest
votes
active
oldest
votes
Simple enough:
$ sed -E 's/,[^ ]+//g' in
chrX_143483005-chr6_103649292 chrX_143483110-chr_6103649147 chrX_143483004-chr6_103649293
chrX_143483110-chr_6103649147 chrX_143483005-chr6_103649292 0
0 chrX_143483005-chr6_103649292 chrX_143482988-chr6_103649147
chrX_143483005-chr6_103649292 0 chrX_143483110-chr_6103649147
0 chrX_143483005-chr6_103649292 chrX_143482988-chr6_103649147
The (extended) regular expression /,[^ ]+/ will match any sequence of a comma followed series of characters which are not a space.
The sed command s will substutute any matches of the first argument (in this case, the given expression), with the second argument (in this case, nothing); the g option to the s command says to make that substitution for all matches found rather than merely the first.
answered 3 hours ago
DopeGhotiDopeGhoti
47.7k56194
awesome !! thanks Can you please explain, how its work?
– Rupesh
3 hours ago
Not working with this line: 0 chrX_143483005-chr6_103649292,chrX_143483110-chr6_103649131 chrX_143482988-chr6_103649147,chrX_143483004-chr6_103649293,chrX_143483110-chr6_103649291,chrX_143483110-chr6_103649053 it removes last column.
– Rupesh
3 hours ago
Looking at your edit, I seem to get the desired output with my given command.
– DopeGhoti
3 hours ago
Ok, now i get it. I have tab separated columns and here you are replacing "space", so i just added sed -E 's/,[^t]+//g' input. its working now thanks for your gentle reply
– Rupesh
3 hours ago
You could even handle tabs and spaces with/,[^ t]+/(:
– DopeGhoti
3 hours ago
add a comment |
Simple enough:
$ sed -E 's/,[^ ]+//g' in
chrX_143483005-chr6_103649292 chrX_143483110-chr_6103649147 chrX_143483004-chr6_103649293
chrX_143483110-chr_6103649147 chrX_143483005-chr6_103649292 0
0 chrX_143483005-chr6_103649292 chrX_143482988-chr6_103649147
chrX_143483005-chr6_103649292 0 chrX_143483110-chr_6103649147
0 chrX_143483005-chr6_103649292 chrX_143482988-chr6_103649147
The (extended) regular expression /,[^ ]+/ will match any sequence of a comma followed series of characters which are not a space.
The sed command s will substutute any matches of the first argument (in this case, the given expression), with the second argument (in this case, nothing); the g option to the s command says to make that substitution for all matches found rather than merely the first.
answered 3 hours ago
DopeGhotiDopeGhoti
47.7k56194
awesome !! thanks Can you please explain, how its work?
– Rupesh
3 hours ago
Not working with this line: 0 chrX_143483005-chr6_103649292,chrX_143483110-chr6_103649131 chrX_143482988-chr6_103649147,chrX_143483004-chr6_103649293,chrX_143483110-chr6_103649291,chrX_143483110-chr6_103649053 it removes last column.
– Rupesh
3 hours ago
Looking at your edit, I seem to get the desired output with my given command.
– DopeGhoti
3 hours ago
Ok, now i get it. I have tab separated columns and here you are replacing "space", so i just added sed -E 's/,[^t]+//g' input. its working now thanks for your gentle reply
– Rupesh
3 hours ago
You could even handle tabs and spaces with/,[^ t]+/(:
– DopeGhoti
3 hours ago
add a comment |
Simple enough:
$ sed -E 's/,[^ ]+//g' in
chrX_143483005-chr6_103649292 chrX_143483110-chr_6103649147 chrX_143483004-chr6_103649293
chrX_143483110-chr_6103649147 chrX_143483005-chr6_103649292 0
0 chrX_143483005-chr6_103649292 chrX_143482988-chr6_103649147
chrX_143483005-chr6_103649292 0 chrX_143483110-chr_6103649147
0 chrX_143483005-chr6_103649292 chrX_143482988-chr6_103649147
The (extended) regular expression /,[^ ]+/ will match any sequence of a comma followed series of characters which are not a space.
The sed command s will substutute any matches of the first argument (in this case, the given expression), with the second argument (in this case, nothing); the g option to the s command says to make that substitution for all matches found rather than merely the first.
answered 3 hours ago
DopeGhotiDopeGhoti
47.7k56194
Simple enough:
$ sed -E 's/,[^ ]+//g' in
chrX_143483005-chr6_103649292 chrX_143483110-chr_6103649147 chrX_143483004-chr6_103649293
chrX_143483110-chr_6103649147 chrX_143483005-chr6_103649292 0
0 chrX_143483005-chr6_103649292 chrX_143482988-chr6_103649147
chrX_143483005-chr6_103649292 0 chrX_143483110-chr_6103649147
0 chrX_143483005-chr6_103649292 chrX_143482988-chr6_103649147
The (extended) regular expression /,[^ ]+/ will match any sequence of a comma followed series of characters which are not a space.
The sed command s will substutute any matches of the first argument (in this case, the given expression), with the second argument (in this case, nothing); the g option to the s command says to make that substitution for all matches found rather than merely the first.
answered 3 hours ago
DopeGhotiDopeGhoti
47.7k56194
edited 3 hours ago
answered 3 hours ago
DopeGhotiDopeGhoti
47.7k56194
answered 3 hours ago
DopeGhotiDopeGhoti
47.7k56194
answered 3 hours ago
DopeGhotiDopeGhoti
47.7k56194
47.7k56194
awesome !! thanks Can you please explain, how its work?
– Rupesh
3 hours ago
Not working with this line: 0 chrX_143483005-chr6_103649292,chrX_143483110-chr6_103649131 chrX_143482988-chr6_103649147,chrX_143483004-chr6_103649293,chrX_143483110-chr6_103649291,chrX_143483110-chr6_103649053 it removes last column.
– Rupesh
3 hours ago
Looking at your edit, I seem to get the desired output with my given command.
– DopeGhoti
3 hours ago
Ok, now i get it. I have tab separated columns and here you are replacing "space", so i just added sed -E 's/,[^t]+//g' input. its working now thanks for your gentle reply
– Rupesh
3 hours ago
You could even handle tabs and spaces with/,[^ t]+/(:
– DopeGhoti
3 hours ago
add a comment |
awesome !! thanks Can you please explain, how its work?
– Rupesh
3 hours ago
Not working with this line: 0 chrX_143483005-chr6_103649292,chrX_143483110-chr6_103649131 chrX_143482988-chr6_103649147,chrX_143483004-chr6_103649293,chrX_143483110-chr6_103649291,chrX_143483110-chr6_103649053 it removes last column.
– Rupesh
3 hours ago
Looking at your edit, I seem to get the desired output with my given command.
– DopeGhoti
3 hours ago
Ok, now i get it. I have tab separated columns and here you are replacing "space", so i just added sed -E 's/,[^t]+//g' input. its working now thanks for your gentle reply
– Rupesh
3 hours ago
You could even handle tabs and spaces with/,[^ t]+/(:
– DopeGhoti
3 hours ago
awesome !! thanks Can you please explain, how its work?
– Rupesh
3 hours ago
awesome !! thanks Can you please explain, how its work?
– Rupesh
3 hours ago
Not working with this line: 0 chrX_143483005-chr6_103649292,chrX_143483110-chr6_103649131 chrX_143482988-chr6_103649147,chrX_143483004-chr6_103649293,chrX_143483110-chr6_103649291,chrX_143483110-chr6_103649053 it removes last column.
– Rupesh
3 hours ago
Not working with this line: 0 chrX_143483005-chr6_103649292,chrX_143483110-chr6_103649131 chrX_143482988-chr6_103649147,chrX_143483004-chr6_103649293,chrX_143483110-chr6_103649291,chrX_143483110-chr6_103649053 it removes last column.
– Rupesh
3 hours ago
Looking at your edit, I seem to get the desired output with my given command.
– DopeGhoti
3 hours ago
Looking at your edit, I seem to get the desired output with my given command.
– DopeGhoti
3 hours ago
Ok, now i get it. I have tab separated columns and here you are replacing "space", so i just added sed -E 's/,[^t]+//g' input. its working now thanks for your gentle reply
– Rupesh
3 hours ago
Ok, now i get it. I have tab separated columns and here you are replacing "space", so i just added sed -E 's/,[^t]+//g' input. its working now thanks for your gentle reply
– Rupesh
3 hours ago
You could even handle tabs and spaces with
/,[^ t]+/ (:– DopeGhoti
3 hours ago
You could even handle tabs and spaces with
/,[^ t]+/ (:– DopeGhoti
3 hours ago
add a comment |
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1
Please, save a cat's life. Rather than
cat file | sed 'thing', simplysed 'thing' file.– DopeGhoti
3 hours ago