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edit all comments to start with '#' instead of '//'
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README.md
171
README.md
@ -144,9 +144,9 @@ grep $'\t'
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```bash
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$echo "$long_str"|grep -q "$short_str"
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if [ $? -eq 0 ]; then echo 'found'; fi
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#grep -q will output 0 if match found
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#remember to add space between []!
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```
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//grep -q will output 0 if match found
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//remember to add space between []!
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##### Grep strings between a bracket()
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```bash
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@ -156,8 +156,9 @@ grep -oP '\(\K[^\)]+'
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##### Grep number of characters with known strings in between(e.g. AAEL000001-RA)
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```bash
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grep -o -w "\w\{10\}\-R\w\{1\}"
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# \w word character [0-9a-zA-Z_] \W not word character
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```
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// \w word character [0-9a-zA-Z_] \W not word character
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##### A lot examples here
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@ -197,11 +198,9 @@ e.g. add >$i to the first line (to make a FASTA file)
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```bash
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sed "1i >$i"
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# notice the double quotes! in other examples, you can use a single quote, but here, no way!
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# '1i' means insert to first line
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```
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//notice the double quotes! in other examples, you can use a single quote, but here, no way!
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//'1i' means insert to first line
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##### Delete/remove empty lines
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```bash
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@ -289,8 +288,10 @@ sed -n 500,5000p filename
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```bash
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sed -n '0~3p' filename
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# catch 0: start; 3: step
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```
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//catch 0: start; 3: step
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##### Print every odd # lines
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@ -315,10 +316,9 @@ sed -e 's/^[ \t]*//'
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```bash
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sed 's/ *//'
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# notice a whitespace before '*'!!
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```
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//notice a whitespace before '*'!!
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##### Remove ending commas
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```bash
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@ -328,9 +328,11 @@ sed 's/,$//g'
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```bash
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sed "s/$/\t$i/"
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# $i is the valuable you want to add
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# e.g. add the filename to every last column of the file
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```
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//$i is the valuable you want to add
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e.g. add the filename to every last column of the file
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```bash
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for i in $(ls);do sed -i "s/$/\t$i/" $i;done
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@ -565,12 +567,10 @@ xargs -d\t
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```bash
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echo 1 2 3 4 5 6| xargs -n 3
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# 1 2 3
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# 4 5 6
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```
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//1 2 3
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4 5 6
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##### Prompt before execution
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```bash
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@ -581,12 +581,10 @@ echo a b c |xargs -p -n 3
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```bash
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xargs -t abcd
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# bin/echo abcd
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# abcd
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```
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///bin/echo abcd
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//abcd
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##### With find and rm
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```bash
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@ -637,12 +635,12 @@ time echo {1..5} |xargs -n1 sleep
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```bash
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find /dir/to/A -type f -name "*.py" -print 0| xargs -0 -r -I file cp -v -p file --target-directory=/path/to/B
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# v: verbose|
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# p: keep detail (e.g. owner)
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```
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//v: verbose|
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//p: keep detail (e.g. owner)
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##### With sed
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```bash
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@ -671,9 +669,9 @@ ls -l| xargs
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```bash
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echo mso{1..8}|xargs -n1 bash -c 'echo -n "$1:"; ls -la "$1"| grep -w 74 |wc -l' --
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```
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// "--" signals the end of options and display further option processing
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# "--" signals the end of options and display further option processing
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```
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##### Download dependencies files and install (e.g. requirements.txt)
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@ -727,10 +725,8 @@ if no subdirectory
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```bash
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replace "www" "w" -- *
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# a space before *
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```
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//a space before *
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##### Find and output only filename (e.g. "mso")
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```bash
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@ -741,8 +737,10 @@ find mso*/ -name M* -printf "%f\n"
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```bash
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find . -name "*.mso" -size -74c -delete
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# M for MB, etc
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```
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//M for MB, etc
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## Loops
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@ -751,9 +749,9 @@ find . -name "*.mso" -size -74c -delete
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```bash
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while read a b c; do echo $(($c-$b));done < <(head filename)
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```
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//there is a space between the two '<'s
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#there is a space between the two '<'s
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```
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##### While loop, sum up column subtraction
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```bash
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@ -766,19 +764,17 @@ i=0; while read a b c; do ((i+=$c-$b)); echo $i; done < <(head filename)
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while [[ $(pidof perl) ]];do echo f;sleep 10;done && python timetorunpython.py
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```
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##### If loop
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```bash
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if (($j==$u+2))
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#(( )) use for arithmetic operation
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```
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//(( )) use for arithmetic operation
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```bash
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if [[$age >21]]
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#[[ ]] use for comparison
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```
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//[[ ]] use for comparison
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##### Test if file exist
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```bash
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@ -864,24 +860,23 @@ echo "var=5;--var"| bc
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```
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## Download
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[[back to top](#handy-bash-oneliner-commands-for-tsv-file-editing)]
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##### Download all from a page
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```bash
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wget -r -l1 -H -t1 -nd -N -np -A mp3 -e robots=off http://example.com
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# -r: recursive and download all links on page
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# -l1: only one level link
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# -H: span host, visit other hosts
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# -t1: numbers of retries
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# -nd: don't make new directories, download to here
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# -N: turn on timestamp
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# -nd: no parent
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# -A: type (seperate by ,)
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# -e robots=off: ignore the robots.txt file which stop wget from crashing the site, sorry example.com
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```
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//-r: recursive and download all links on page
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//-l1: only one level link
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//-H: span host, visit other hosts
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//-t1: numbers of retries
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//-nd: don't make new directories, download to here
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//-N: turn on timestamp
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//-nd: no parent
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//-A: type (seperate by ,)
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//-e robots=off: ignore the robots.txt file which stop wget from crashing the site, sorry example.com
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##### Upload a file to web and download (https://transfer.sh/)
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--> upload:
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@ -1041,16 +1036,15 @@ tr /a-z/ /A-Z/
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```bash
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diff fileA fileB
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# a: added; d:delete; c:changed
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```
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//a: added; d:delete; c:changed
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or
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```bash
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sdiff fileA fileB
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# side-to-side merge of file differences
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```
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//side-to-side merge of file differences
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##### Number a file (e.g. fileA)
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@ -1061,23 +1055,19 @@ or
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```bash
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nl -nrz fileA
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# add leading zeros
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```
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//add leading zeros
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or
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```bash
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nl -w1 -s ' '
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# making it simple, blank seperated
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```
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//making it simple, blank seperated
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##### Combine/ paste two files (e.g. fileA, fileB)
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```bash
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paste fileA fileB
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# default tab seperated
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```
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//default tab seperated
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##### Reverse string
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```bash
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@ -1118,17 +1108,15 @@ or
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```bash
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some_commands 2>&1 >>outfile
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#0: standard input; 1: standard output; 2: standard error
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```
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//0: standard input; 1: standard output; 2: standard error
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##### Send mail
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```bash
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echo 'heres the content'| mail -a /path/to/attach_file.txt -s 'mail.subject' me@gmail.com
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# use -a flag to set send from (-a "From: some@mail.tld")
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```
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//use -a flag to set send from (-a "From: some@mail.tld")
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##### .xls to csv
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@ -1211,9 +1199,8 @@ or
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```bash
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!c
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# run cat filename again
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```
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//run cat filename again
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##### Extract .xf
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@ -1242,17 +1229,15 @@ or
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```bash
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Alt+Shift+#
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# to make it to history
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```
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//to make it to history
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##### Add something to history (e.g. "addmetohistory")
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```bash
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#addmetodistory
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#just add a "#" before~~
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```
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//just add a "#" before~~
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##### Sleep awhile or wait for a moment or schedule a job
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@ -1282,10 +1267,9 @@ rsync -av directory user@ip_address:/path/to/directory.bak
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```bash
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mkdir -p project/{lib/ext,bin,src,doc/{html,info,pdf},demo/stat}
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# -p: make parent directory
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# this will create project/doc/html/; project/doc/info; project/lib/ext ,etc
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```
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//-p: make parent directory
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//this will create project/doc/html/; project/doc/info; project/lib/ext ,etc
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##### Run command only if another command returns zero exit status (well done)
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@ -1317,15 +1301,16 @@ cd tmp/a/b/c \
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```bash
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VAR=$PWD; cd ~; tar xvf -C $VAR file.tar
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# PWD need to be capital letter
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```
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//PWD need to be capital letter
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##### List file type of file (e.g. /tmp/)
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```bash
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file /tmp/
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# tmp/: directory
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```
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//tmp/: directory
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##### Bash script
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@ -1333,13 +1318,13 @@ file /tmp/
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```bash
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#!/bin/bash
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file=${1#*.}
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# remove string before a "."
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```
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//remove string before a "."
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```bash
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file=${1%.*}
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# remove string after a "."
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```
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//remove string after a "."
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##### Search from history
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@ -1367,7 +1352,7 @@ e.g. with grep
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```bash
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test="god the father"
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grep ${test// /\\\|} file.txt
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#turning the space into 'or' (\|) in grep
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# turning the space into 'or' (\|) in grep
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```
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##### Read user input
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@ -1393,9 +1378,8 @@ i=`wc -l filename|cut -d ' ' -f1`; cat filename| echo "scale=2;(`paste -sd+`)/"$
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```bash
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echo {1,2}{1,2}
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# 1 1, 1 2, 2 1, 2 2
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```
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//1 1, 1 2, 2 1, 2 2
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##### Generate all combination (e.g. A,T,C,G)
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```bash
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@ -1750,8 +1734,8 @@ export PATH=$PATH:~/path/you/want
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```bash
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chmod +x filename
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# you can now ./filename to execute it
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```
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//you can now ./filename to execute it
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##### List screen
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@ -1789,8 +1773,9 @@ passwd username
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```bash
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1. joe ~/.bash_profile
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2. export PS1='\u@\h:\w\$'
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# $PS1 is a variable that defines the makeup and style of the command prompt
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```
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//$PS1 is a variable that defines the makeup and style of the command prompt
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```bash
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3. source ~/.bash_profile
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```
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@ -1807,9 +1792,8 @@ passwd username
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```bash
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$echo $PATH
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# list of directories separated by a colon
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```
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//list of directories separated by a colon
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##### List all environment variables for current user
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```bash
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@ -1826,8 +1810,8 @@ lsblk
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```bash
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ln -s /path/to/program /home/usr/bin
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# must be the whole path to the program
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```
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//must be the whole path to the program
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##### Show hexadecimal view of data
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@ -1947,22 +1931,22 @@ getent database_name
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```bash
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getent passwd
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# list all user account (all local and LDAP)
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# (e.g. fetch list of grop accounts)
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```
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//list all user account (all local and LDAP)
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(e.g. fetch list of grop accounts)
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```bash
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getent group
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# store in database 'group'
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```
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//store in database 'group'
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##### Change owner of file
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```bash
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chown user_name filename
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chown -R user_name /path/to/directory/
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# chown user:group filename
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```
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//chown user:group filename
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##### List current mount detail
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@ -2012,9 +1996,8 @@ if [$(id -u) -ne 0];then
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echo "You are not root!"
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exit;
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fi
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# 'id -u' output 0 if it's not root
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```
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//'id -u' output 0 if it's not root
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##### Find out CPU information
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```bash
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@ -2039,11 +2022,10 @@ quota -v username
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```
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##### Fork bomb
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# dont try this at home
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```bash
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:(){:|:&};:
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```
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//dont try this at home
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##### Check user login
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@ -2055,9 +2037,8 @@ lastlog
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```bash
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joe /etc/environment
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# edit this file
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```
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//edit this file
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##### Show running processes
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```bash
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