Chastity filter raw Illumina data (grep reads containing :N:, append (-A) the three lines after the match containing the sequence and quality info, and write a new filtered fastq file):find *fq | parallel "cat {} | grep -A 3 '^@.*[^:]*:N:[^:]*:' | grep -v '^\-\-$' ...
# find will not truncate filenames containing spaces find $DIR -type f | while read file; do # using POSIX class [:space:] to find space in the filename if [[ "$file" = *[[:space:]]* ]]; then # substitute space with "_" character and consequently rename the file mv "$file...
If grep finds the string, the first block (echo "Text files found.") is executed; if not, the else block executes. 3.1 Searching for Pattern Using grep We can use grep with -E option to search for pattern in the Output. Suppose we need to find all .txt files in a folder. In ...
Determine file type. file filename Example: $ file index.html index.html: HTML document, ASCII text g.find Find files in directory find directory options pattern Example: $ find.-name README.md $ find /home/user1 -name'*.png'
printf的%q生成的输出被正确地加了引号以供shell阅读，但它通常不使用双引号。完整输出行的示例是make-...
Example 16 – Find and replace a string Example 17 – Check the existence of a file Example 18 – Disk status Example 19 – System uptime and current date Example 20 – Count the number of files What is shell/bash scripting? Bash scripting provides a powerful tool for automating tasks on...
You may find useful to use both. ### Define Debug environment ### Filename: my-debug-env if [[ -v TRACE ]]; then echo "Run TRACE mode" set -o xtrace # same as set -x fi if [[ -v NOOP ]]; then echo "Run NOOP mode" set -o noexec # same as set -n fi trap 'echo ...
printf的%q生成的输出被正确地加了引号以供shell阅读，但它通常不使用双引号。完整输出行的示例是make-...
if ! grep -q lookupWord "$myFile"; then echo 'Failed to grep'; fi How to use the BASH_REMATCH variable with the Regular Expression Operator =~? The Regular Expression conditional operator =~ takes a string value on the left side and a Bash extended regular expression on the right si...
I want to have a function with a similar interface: search *.cpp asdf that will search recursively all directories for *.cpp file, containing line 'asdf' inside. I tried this: function search { find . -name "$1" | xargs grep -li $2; } But it doesn't work all the time...