hi,
OK. I am writing a bash script, and it is almost working for me.
Problem 1: I currently have stout sent to a file (stout.miRNA.bash.$date_formatted) which I would like to have work inside my loop, but when I move it, it just prints to the screen.
Problem 2: I have a second file (summary.fastqc.$date_formatted), which is basically redirecting the same output file from multiple run output directories.
Is there a way to consolidate these output within the loop so that there is no need for the last cat statement (which is not working) and a third file? So, the script would basically print stout1 summary1; stout2 summary2;... stoutN summaryN.
Problem 3: Is there a way to add in sed/awk to print out specific lines (using search term) of the stout (stout.miRNA.bash.$date_formatted) within the loop, so that I could get the mother load and have edited_stout1 summary1; edited_stout2 summary2;... edited_stoutN summaryN?
HERE IS SOME OF THE CODE, MINUS CALLS TO PROGRAMS INSIDE THE LOOP
Thanks for trying to wrap your head around this one:-)
Last edited by Corona688; 08-07-2014 at 06:19 PM..
Reason: needed to say thanks
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LEARN ABOUT OPENSOLARIS
libbash
LIBBASH(7) libbash Manual LIBBASH(7)NAME
libbash -- A bash shared libraries package.
DESCRIPTION
libbash is a package that enables bash dynamic-like shared libraries. Actually its a tool for managing bash scripts whose functions you may
want to load and use in scripts of your own.
It contains a 'dynamic loader' for the shared libraries ( ldbash(1)), a configuration tool (ldbashconfig(8)), and some libraries.
Using ldbash(1) you are able to load loadable bash libraries, such as getopts(1) and hashstash(1). A bash shared library that can be loaded
using
ldbash(1) must answer 4 requirments:
1. It must be installed in $LIBBASH_PREFIX/lib/bash (default is /usr/lib/bash).
2. It must contain a line that begins with '#EXPORT='. That line will contain (after the '=') a list of functions that the library
exports. I.e. all the function that will be usable after loading that library will be listed in that line.
3. It must contain a line that begins with '#REQUIRE='. That line will contain (after the '=') a list of bash libraries that are
required for our library. I.e. every bash library that is in use in our bash library must be listed there.
4. The library must be listed (For more information, see ldbashconfig(8)).
Basic guidelines for writing library of your own:
1. Be aware, that your library will be actually sourced. So, basically, it should contain (i.e define) only functions.
2. Try to declare all variables intended for internal use as local.
3. Global variables and functions that are intended for internal use (i.e are not defined in '#EXPORT=') should begin with:
__<library_name>_
For example, internal function myfoosort of hashstash library should be named as
__hashstash_myfoosort
This helps to avoid conflicts in global name space when using libraries that come from different vendors.
4. See html manual for full version of this guide.
AUTHORS
Hai Zaar <haizaar@haizaar.com>
Gil Ran <ril@ran4.net>
SEE ALSO ldbash(1), ldbashconfig(8), getopts(1), hashstash(1)colors(1)messages(1)urlcoding(1)locks(1)Linux Epoch Linux