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I wanted to run these sed lines:
sed 's/\/1\/1/\/1/g' file -i && sed 's/\/2\/2/\/2/g' file -i
over a file like this:
chr9_paternal 126628489 126629719 616L7AAXX_HWUSI-EAS627_0005:1:1:1157:5733/1/1 0 + 126628489 126629719 255,0,0 2
19,57 0,1173
chr20_paternal 34093622 34093697 616L7AAXX_HWUSI-EAS627_0005:1:1:1158:4527/1/1 0 + 34093622 34093697 255,0,0 1
75 0
chr17_paternal 44627748 44633513 616L7AAXX_HWUSI-EAS627_0005:1:1:1158:5412/2/2 0 + 44627748 44633513 255,0,0 2
36,40 0,5725
chr1_paternal 224204536 224204611 616L7AAXX_HWUSI-EAS627_0005:1:1:1158:2312/1 0 + 224204536 224204611 255,0,0 1
75 0
chr7_paternal 132309510 132309585 616L7AAXX_HWUSI-EAS627_0005:1:1:1158:1687/2/2 0 + 132309510 132309585 255,0,0 1
75 0
chr20_paternal 45708069 45708144 616L7AAXX_HWUSI-EAS627_0005:1:1:1158:13916/1 63 + 45708069 45708144 255,0,0 1
75 0
chr9_paternal 134850662 134850737 616L7AAXX_HWUSI-EAS627_0005:1:1:1158:10141/1/1 72 + 134850662 134850737 255,0,0 1
75 0
chrX_paternal 71603273 71603348 616L7AAXX_HWUSI-EAS627_0005:1:1:1158:8367/2 30 + 71603273 71603348 255,0,0 1
in order to get this output:
chr9_paternal 126628489 126629719 616L7AAXX_HWUSI-EAS627_0005:1:1:1157:5733/1 0 + 126628489 126629719 255,0,0 2
19,57 0,1173
chr20_paternal 34093622 34093697 616L7AAXX_HWUSI-EAS627_0005:1:1:1158:4527/1 0 + 34093622 34093697 255,0,0 1
75 0
chr17_paternal 44627748 44633513 616L7AAXX_HWUSI-EAS627_0005:1:1:1158:5412/2 0 + 44627748 44633513 255,0,0 2
36,40 0,5725
chr1_paternal 224204536 224204611 616L7AAXX_HWUSI-EAS627_0005:1:1:1158:2312/1 0 + 224204536 224204611 255,0,0 1
75 0
chr7_paternal 132309510 132309585 616L7AAXX_HWUSI-EAS627_0005:1:1:1158:1687/2 0 + 132309510 132309585 255,0,0 1
75 0
chr20_paternal 45708069 45708144 616L7AAXX_HWUSI-EAS627_0005:1:1:1158:13916/1 63 + 45708069 45708144 255,0,0 1
75 0
chr9_paternal 134850662 134850737 616L7AAXX_HWUSI-EAS627_0005:1:1:1158:10141/1 72 + 134850662 134850737 255,0,0 1
75 0
chrX_paternal 71603273 71603348 616L7AAXX_HWUSI-EAS627_0005:1:1:1158:8367/2 30 + 71603273 71603348 255,0,0 1
But the file is pretty big and I don't want to read it twice. It is possible run a sed code that execute two instructions at once?
845
There are several methods to specify multiple commands in a sed program. Using newlines is most natural when running a sed script from a file (using the -f option). The { , } , b , t , T , : commands can be separated with a semicolon (this is a non-portable GNU sed extension).
In this article let us review how to combine multiple sed commands using option -e as shown below. Note: -e option is optional for sed with single command. sed will execute the each set of command while processing input from the pattern buffer.
The semicolon (;) operator allows you to execute multiple commands in succession, regardless of whether each previous command succeeds. For example, open a Terminal window (Ctrl+Alt+T in Ubuntu and Linux Mint). Then, type the following three commands on one line, separated by semicolons, and press Enter.
You can use -e to execute multiple expressions in one sed call:
sed -e <expr> -e <expr> -i <file>
If I understood it correctly, you want to replace /1/1 with /1 and likewise, /2/2 with /2:
sed -i 's:/1/1:/1:;s:/2/2:/2:' file
Use the colon : instead of / so you can avoid escaping.
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