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Full Discussion: Bash: join 2 files
Top Forums Shell Programming and Scripting Bash: join 2 files Post 302886417 by MumuGB on Friday 31st of January 2014 10:10:56 AM
Old 01-31-2014
Wrench Bash: join 2 files
Hello !

I want to join 2 files.
They look like this:
Code:
KE340296.1    1    0/0:11
KE340296.1    2    0/0:12
KE340296.1    6    0/1:13
KE340297.1    1    0/1:14
KE340297.1    3    0/1:15
KE340297.1    4    0/1:16

and
Code:
KE340296.1    1    0/0:21
KE340296.1    2    0/0:22
KE340296.1    3    0/1:23
KE340297.1    1    0/1:24
KE340297.1    2    0/1:25
KE340297.1    3    0/1:26

I would like to obtain this: Columns 1 and 2 are the two first columns of the two files. Column 3 corresponds to file1:col3 and column 4 to file2:col3.
Code:
KE340296.1    1    0/0:11   0/0:21
KE340296.1    2    0/0:12   0/0:22
KE340296.1    3    .        0/1:23
KE340296.1    6    0/1:13   .
KE340297.1    1    0/1:14   0/1:24
KE340297.1    2    .        0/1:25
KE340297.1    3    0/1:15   0/1:26
KE340297.1    4    0/1:16   .

Let me explain:
These two files are sorted by first the colum 1 where I have this names KE... and then by the column 2 (position).
The tricky thing is that for some position, I don't have a value in one of the file. For instance in KE340296.1, position 4, I have only a value in the first file.
The file I want to obtain contains all the positions represented in the two files (there may be hole, as for KE340296.1, no position 4 and 5 in either of the two files) and if there is no value for one of the file, then I would like a dot or whatever character.

I wanted to use "join" but it seems that it won't work because positions are not perfectly matching.

Any one knows how I can do that ?

Thanks a lot !

Mu
 

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LEARN ABOUT OSX

tk_nameofjoinstyle

Tk_GetJoinStyle(3)					       Tk Library Procedures						Tk_GetJoinStyle(3)

__________________________________________________________________________________________________________________________________________________

NAME

       Tk_GetJoinStyle, Tk_NameOfJoinStyle - translate between strings and join styles

SYNOPSIS

       #include <tk.h>

       int
       Tk_GetJoinStyle(interp, string, joinPtr)

       const char *
       Tk_NameOfJoinStyle(join)

ARGUMENTS

       Tcl_Interp *interp (in)		 Interpreter to use for error reporting.

       const char *string (in)		 String containing name of join style: one of "bevel", "miter", or "round".

       int *joinPtr (out)		 Pointer to location in which to store X join style corresponding to string.

       int join (in)			 Join style: one of JoinBevel, JoinMiter, JoinRound.
_________________________________________________________________

DESCRIPTION

       Tk_GetJoinStyle places in *joinPtr the X join style corresponding to string, which will be one of JoinBevel, JoinMiter, or JoinRound.  Join
       styles are typically used in X graphics contexts to indicate how adjacent line segments should be joined together.  See the X documentation
       for information on what each style implies.

       Under  normal circumstances the return value is TCL_OK and interp is unused.  If string does not contain a valid join style or an abbrevia-
       tion of one of these names, then an error message is stored in interp->result, TCL_ERROR is returned, and *joinPtr is unmodified.

       Tk_NameOfJoinStyle is the logical inverse of Tk_GetJoinStyle.  Given a join style such  as  JoinBevel  it  returns  a  statically-allocated
       string corresponding to join.  If join is not a legal join style, then "unknown join style" is returned.

KEYWORDS

       bevel, join style, miter, round

Tk																Tk_GetJoinStyle(3)
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