Diff for "BashFAQ/036"

Differences between revisions 3 and 13 (spanning 10 versions)

How can I get all lines that are: in both of two files (set intersection) or in only one of two files (set subtraction).

Use the comm(1) command:

# Bash
# Intersection of file1 and file2
# (i.e., only the lines that appear in both files)
comm -12 <(sort file1) <(sort file2)

# Subtraction of file1 from file2
# (i.e., only the lines unique to file2)
comm -13 <(sort file1) <(sort file2)

Read the comm man page for details. Those are process substitutions you see up there.

If for some reason you lack the core comm program, you can use these other methods. (Actually, you really should NOT use any of these. They were written by people who didn't know about comm yet. But people love slow, arcane alternatives!)

An amazingly simple and fast implementation, that took just 20 seconds to match a 30k line file against a 400k line file for me.
```
  # intersection of file1 and file2
  grep -xF -f file1 file2

  # subtraction of file1 from file2
  grep -vxF -f file1 file2
```
- It has grep read one of the sets as a pattern list from a file (-f), and interpret the patterns as plain strings not regexps (-F), matching only whole lines (-x).
- Note that the file specified with -f will be loaded into memory, so it doesn't scale for very large files.
- It should work with any POSIX grep; on older systems you may need to use fgrep rather than grep -F.

An implementation using sort and uniq:

  # intersection of file1 and file2
  sort file1 file2 | uniq -d  (Assuming each of file1 or file2 does not have repeated content)

  # file1-file2 (Subtraction)
  sort file1 file2 file2 | uniq -u

  # same way for file2 - file1, change last file2 to file1
  sort file1 file2 file1 | uniq -u

Another implementation of subtraction:
```
  sort file1 file1 file2 | uniq -c |
  awk '{ if ($1 == 2) { $1 = ""; print; } }'
```
- This may introduce an extra space at the start of the line; if that's a problem, just strip it away.
- Also, this approach assumes that neither file1 nor file2 has any duplicates in it.
- Finally, it sorts the output for you. If that's a problem, then you'll have to abandon this approach altogether. Perhaps you could use awk's associative arrays (or perl's hashes or tcl's arrays) instead.

These are subtraction and intersection with awk, regardless of whether the input files are sorted or contain duplicates:

  # prints lines only in file1 but not in file2. Reverse the arguments to get the other way round
  awk 'NR==FNR{a[$0];next} !($0 in a)' file2 file1

  # prints lines that are in both files; order of arguments is not important
  awk 'NR==FNR{a[$0];next} $0 in a' file1 file2

For an explanation of how these work, see http://awk.freeshell.org/ComparingTwoFiles.

CategoryShell

-  ⇤ ← Revision 3 as of 2007-07-27 15:13:45 → 
  Size: 2041
  Editor: ws-99
  Comment: Link to docs I did on set operations on the command line, when google at least gave no hits on the subject
+   ← Revision 13 as of 2010-12-28 17:17:57 → ⇥
  Size: 2970
  Editor: GreyCat
  Comment: clarify first example
-Deletions are marked like this.
+Additions are marked like this.
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-[[Anchor(faq36)]]
+<<Anchor(faq36)>>
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-Use the comm(1) command.
+Use the `comm(1)` command:
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-  # intersection of file1 and file2
  comm -12 <(sort file1) <(sort file2)
  # subtraction of file1 from file2
  comm -13 <(sort file1) <(sort file2)}}}
+# Bash
# Intersection of file1 and file2
# (i.e., only the lines that appear in both files)
comm -12 <(sort file1) <(sort file2)
-Line 12:
+Line 11:
-Read the comm(1) manpage for details.
+# Subtraction of file1 from file2
# (i.e., only the lines unique to file2)
comm -13 <(sort file1) <(sort file2)
}}}
-Line 14:
+Line 16:
-If for some reason you lack the core comm(1) program, you can use these other methods:
+Read the `comm` man page for details.  Those are [[ProcessSubstitution|process substitutions]] you see up there.

If for some reason you lack the core `comm` program, you can use these other methods.  (Actually, you really should NOT use any of these.  They were written by people who didn't know about `comm` yet.  But people love slow, arcane alternatives!)
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+Line 21:
-  * Note that it probably only works with GNU grep, and that the file specified with -f is will be loaded into ram, so it doesn't scale for very large files.

  * It has grep read one of the sets as a pattern list from a file (-f), and interpret the patterns as plain strings not regexps (-F), matching only whole lines (-x).
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+Line 24:
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-  grep -vxF -f file1 file2}}}
+  grep -vxF -f file1 file2
 }}}
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+Line 29:
-. An implementation using sort and uniq
+  * It has grep read one of the sets as a pattern list from a file (-f), and interpret the patterns as plain strings not regexps (-F), matching only whole lines (-x).
  * Note that the file specified with -f will be loaded into memory, so it doesn't scale for very large files.
  * It should work with any POSIX grep; on older systems you may need to use `fgrep` rather than `grep -F`.
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+Line 33:
+. An implementation using sort and uniq:
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+Line 37:
-Line 35:
+Line 40:
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+Line 42:
-  sort file1 file2 file1 | uniq -u}}}
+  sort file1 file2 file1 | uniq -u
 }}}
-Line 40:
+Line 47:
-  cat file1 file1 file2 | sort | uniq -c |
  awk '{ if ($1 == 2) { $1 = ""; print; } }'}}}
+  sort file1 file1 file2 | uniq -c |
  awk '{ if ($1 == 2) { $1 = ""; print; } }'
 }}}
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+Line 52:
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+Line 53:
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+. These are subtraction and intersection with awk, regardless of whether the input files are sorted or contain duplicates:
 {{{
  # prints lines only in file1 but not in file2. Reverse the arguments to get the other way round
  awk 'NR==FNR{a[$0];next} !($0 in a)' file2 file1

  # prints lines that are in both files; order of arguments is not important
  awk 'NR==FNR{a[$0];next} $0 in a' file1 file2
 }}}
 For an explanation of how these work, see [[http://awk.freeshell.org/ComparingTwoFiles]].
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+Line 66:
+----
CategoryShell