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Top Forums Shell Programming and Scripting Selectively splitting a file with C-shell? Post 302150200 by fusi0n on Monday 10th of December 2007 02:41:43 PM
Old 12-10-2007
Selectively splitting a file with C-shell?

I have a rather long csh script that works, but it's terribly ungraceful and takes a while from various loops. I only know enough code to get myself into trouble, so I'm looking for some guidance.

I have a large file that is separated at intervals by the same line, like this:

@<TRIPOS>molecule
name_000
blah
yadda
stuff
@<TRIPOS>molecule
name_001
blah2
yadda2
stuff2
@<TRIPOS>molecule
name_002
blah3
...

and so on for up to name_200, where blah/yadda/stuff are strings with numbers, letters, and white spaces.

I need to split this file into individual files, named name_000.mol2, name_001.mol2, name_002.mol2 etc, each of which contain:

@<TRIPOS>molecule
name_000 (or name_whatever)
blah
yadda
stuff

Currently I grep -n 'TRIPOS>molecule' the big file into another file, then use the line numbers to cycle through and pull out lines x through y, naming each file based on what's in line x+1 (name_000), with .mol2 on the end. This takes an incredibly long time, and is rather clunky. I don't know if it's the file cycling or all the variables I pass back and forth that eats up the time, but if anyone knows of an easier way to split the big file up, I would greatly appreciative!

I can't come up with a good way to do this in awk - the line numbers between each TRIPOS>molecule are variable, and my awk-fu is rather weak. I also need to keep this in CSH or I'll have to convert a ton of other code.

Any ideas?

Thanks!
 

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exit(1)                                                            User Commands                                                           exit(1)

NAME
exit, return, goto - shell built-in functions to enable the execution of the shell to advance beyond its sequence of steps SYNOPSIS
sh exit [n] return [n] csh exit [ ( expr )] goto label ksh *exit [n] *return [n] DESCRIPTION
sh exit will cause the calling shell or shell script to exit with the exit status specified by n. If n is omitted the exit status is that of the last command executed (an EOF will also cause the shell to exit.) return causes a function to exit with the return value specified by n. If n is omitted, the return status is that of the last command exe- cuted. csh exit will cause the calling shell or shell script to exit, either with the value of the status variable or with the value specified by the expression expr. The goto built-in uses a specified label as a search string amongst commands. The shell rewinds its input as much as possible and searches for a line of the form label: possibly preceded by space or tab characters. Execution continues after the indicated line. It is an error to jump to a label that occurs between a while or for built-in command and its corresponding end. ksh exit will cause the calling shell or shell script to exit with the exit status specified by n. The value will be the least significant 8 bits of the specified status. If n is omitted then the exit status is that of the last command executed. When exit occurs when executing a trap, the last command refers to the command that executed before the trap was invoked. An end-of-file will also cause the shell to exit except for a shell which has the ignoreeof option (See set below) turned on. return causes a shell function or '.' script to return to the invoking script with the return status specified by n. The value will be the least significant 8 bits of the specified status. If n is omitted then the return status is that of the last command executed. If return is invoked while not in a function or a '.' script, then it is the same as an exit. On this man page, ksh(1) commands that are preceded by one or two * (asterisks) are treated specially in the following ways: 1. Variable assignment lists preceding the command remain in effect when the command completes. 2. I/O redirections are processed after variable assignments. 3. Errors cause a script that contains them to abort. 4. Words, following a command preceded by ** that are in the format of a variable assignment, are expanded with the same rules as a vari- able assignment. This means that tilde substitution is performed after the = sign and word splitting and file name generation are not performed. ATTRIBUTES
See attributes(5) for descriptions of the following attributes: +-----------------------------+-----------------------------+ | ATTRIBUTE TYPE | ATTRIBUTE VALUE | |Availability |SUNWcsu | +-----------------------------+-----------------------------+ SEE ALSO
break(1), csh(1), ksh(1), sh(1), attributes(5) SunOS 5.10 15 Apr 1994 exit(1)
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