06-03-2019
Quote:
Originally Posted by
RudiC
Hmmm - I don't see any "ALA" in your recent sample data file - what be the desired result from it? I see one each of the 4 / ARG, 5 / SER, and 6 / ASP combinations...
As I told in the posts before the AAA value can be any of the 20 amino acids (ALA, ARG, ASN, ASP, CYS, GLN, GLY, GLU, HIS, ILE, LEU, LYS, MET, PHE, PRO, SER, THR, TRP, TYR or VAL). In the first example it was ALA which I posted, now I posted with ARG, SER and ASP, but basically the most important value is AAA which can get any value of the 20 amino acids and for that I need to calculate the count for that specific amino acid (it can be chosen as ALA, ARG, ASN or any other of the 20 and for that I need to calculate the count of that amino acid without duplication). To make it clearer from the recent example I need to get only
1 ARG from the same numbering as
r(4) that is given
11 times. For SER and ARG it also has to be
1 each even though they are repeated
r<5> 6 times and
r<6> 8 times respectively. However in the data file these specific AAA occurences are repeated in the data set with different integer
r<x> values where
x is from 1 to 1000.
Last edited by Aurimas; 06-03-2019 at 07:26 AM..
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LEARN ABOUT DEBIAN
orbit-idl-2
ORBIT-IDL-2(1) General Commands Manual ORBIT-IDL-2(1)
NAME
orbit-idl-2 - IDL compiler for ORBit2
SYNOPSIS
orbit-idl-2 [ options ] file...
DESCRIPTION
orbit-idl-2 converts object interface descriptions written in CORBA IDL (Interface Definition Language) into C code that you can compile
and link into your programs.
OPTIONS
orbit-idl-2 accepts the following options:
-d ARG
--debug=ARG
Set the debug level. Supported levels are 0 to 4, default is 2.
--idlwarnlevel=INT
Set the warning level for compiler warnings. Supported levels are 0 to 4, default is 2.
--showcpperrors
Show errors from cpp(1).
--small
Optimize for size instead of speed.
--oldstyle
Use the old style IDL compiler (not generally recommended).
--skeleton-impl
Generate a skeleton-impl file.
--nostubs
Do not create the stubs file.
--noskels
Do not create the skels file.
--nocommon
Do not create the common file.
--noheaders
Do not create the headers file.
--noidata
Don't generate Interface type data.
-i
--imodule
Generate only an imodule file (no skels, stubs, etc.).
--add-imodule
Generate an imodule file (as well as other files generated by default or by other options).
--onlytop
Inhibit file includes.
--pidl Treat source as pseudo-IDL.
-D ARG
--define=ARG
Define name for preprocessor.
-I PATH
--include=PATH
Add search path for include files.
--deps=FILENAME
Generate dependency information, suitable for inclusion in a Makefile.
-l ARG
--lang=ARG
Specify the output language. The default is C. Support for languages other than C requires the installation of a backend for that
language.
--backenddir=DIR
Specify the directory where a language backend is stored (not necessary if backend is stored in the default directory).
--usage
Print a very brief usage summary.
-?
--help
Print a slightly more detailed usage summary.
-v
--version
Print version number and serial.
COMPILING
The IDL file(s) compiled by orbit-idl-2 define the interfaces to network-transparent objects. These files are first passed to cpp(1), the
C Preprocessor, then the result is parsed, and the C code is generated.
By default, orbit-idl-2 generates four files, the stubs, skels, common, and header files. If your input file is named sample.idl, then
the output files will be named, respectively, sample-stubs.c, sample-skels.c, sample-common.c, and sample.h. You can optionally also gen-
erate a skeleton-impl file (which would be named sample-skelimpl.c in our example), or an imodule file (e.g. sample-imodule.c). These
files require manual editing to be useful, and is therefore not generated by default.
The generated C files are formatting ("pretty-printed") using indent(1). You can use another program for this if you prefer, with the --c-
output-formatter argument.
SEE ALSO
orbit2-config(1), cpp(1), indent(1), /usr/share/doc/liborbit2-dev, http://orbit-resource.sourceforge.net, http://www.omg.org.
AUTHOR
Copyright (C) 2001, 2002 Dick Porter <dick@acm.org> and Elliot Lee <sopwith@redhat.com>
This manual was originally written for orbit-idl by Chris Waters <xtifr@debian.org> for Debian GNU/Linux.
Version 0.5.15 18 March 2002 ORBIT-IDL-2(1)