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Top Forums UNIX for Dummies Questions & Answers Installing packages...need help with the basics Post 302899287 by drl on Monday 28th of April 2014 10:36:00 AM
Old 04-28-2014
Hi.

This thread is similar to one at Installing a command/program to a remote computer

Noted there is information from one source of fastq-dump that there are pre-compiled binaries for some platforms.

If I were you, I would practice installing to an area under my home directory on the Mac because when you go to the campus Linux cluster, you will not likely have adminstration rights there, so that you will need to do a number of tasks differently.

In addition, simply copying from the Mac to the Linux cluster will probably not work. You could test this out beforhand by copying, say the Mac version of system command ls to your home directory on the Linux cluster and try to execute it. Mac hardware is (now) Intel, but the OS is essentailly FreeBSD, and I don't see that as running under Linux. Here's an example: I copied /bin/ls from a PCBSD machine to a Debian machine:
Code:
OS, ker|rel, machine: FreeBSD, 9.2-RELEASE-p8, amd64

OS, ker|rel, machine: Linux, 3.2.0-4-amd64, x86_64
Distribution        : Debian 7.4 (wheezy, workstation-vm)

working with that file on the original machine:
Code:
$ cp /bin/ls ~
$ ls -ln ./ls
-r-xr-xr-x  1 1001  1001  32256 Apr 28 09:26 ./ls
$ file ./ls
./ls: ELF 64-bit LSB executable, x86-64, version 1 (FreeBSD), dynamically linked (uses shared libs), for FreeBSD 9.2, stripped
$ ./ls
Desktop		Music		Videos		log		try
...

transferring and working with that file ls on Debian::
Code:
$ ls -lgG ./ls
-r-xr-xr-x 1 32256 Apr 28 09:21 ./ls*
$ file ./ls
./ls: ELF 64-bit LSB executable, x86-64, version 1 (FreeBSD), dynamically linked (uses shared libs), for FreeBSD 9.2, stripped
$ ./ls
-bash: ./ls: No such file or directory

However, I do not know from where you are getting fastq-dump, so things might be different for you.

Best wishes ... cheers, drl
 

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ELFEDIT(1)						       GNU Development Tools							ELFEDIT(1)

NAME
elfedit - Update the ELF header of ELF files. SYNOPSIS
elfedit [--input-mach=machine] [--input-type=type] [--input-osabi=osabi] --output-mach=machine --output-type=type --output-osabi=osabi [-v|--version] [-h|--help] elffile... DESCRIPTION
elfedit updates the ELF header of ELF files which have the matching ELF machine and file types. The options control how and which fields in the ELF header should be updated. elffile... are the ELF files to be updated. 32-bit and 64-bit ELF files are supported, as are archives containing ELF files. OPTIONS
The long and short forms of options, shown here as alternatives, are equivalent. At least one of the --output-mach, --output-type and --output-osabi options must be given. --input-mach=machine Set the matching input ELF machine type to machine. If --input-mach isn't specified, it will match any ELF machine types. The supported ELF machine types are, L1OM, K1OM and x86-64. --output-mach=machine Change the ELF machine type in the ELF header to machine. The supported ELF machine types are the same as --input-mach. --input-type=type Set the matching input ELF file type to type. If --input-type isn't specified, it will match any ELF file types. The supported ELF file types are, rel, exec and dyn. --output-type=type Change the ELF file type in the ELF header to type. The supported ELF types are the same as --input-type. --input-osabi=osabi Set the matching input ELF file OSABI to osabi. If --input-osabi isn't specified, it will match any ELF OSABIs. The supported ELF OSABIs are, none, HPUX, NetBSD, GNU, Linux (alias for GNU), Solaris, AIX, Irix, FreeBSD, TRU64, Modesto, OpenBSD, OpenVMS, NSK, AROS and FenixOS. --output-osabi=osabi Change the ELF OSABI in the ELF header to osabi. The supported ELF OSABI are the same as --input-osabi. -v --version Display the version number of elfedit. -h --help Display the command line options understood by elfedit. @file Read command-line options from file. The options read are inserted in place of the original @file option. If file does not exist, or cannot be read, then the option will be treated literally, and not removed. Options in file are separated by whitespace. A whitespace character may be included in an option by surrounding the entire option in either single or double quotes. Any character (including a backslash) may be included by prefixing the character to be included with a backslash. The file may itself contain additional @file options; any such options will be processed recursively. SEE ALSO
readelf(1), and the Info entries for binutils. COPYRIGHT
Copyright (c) 1991, 1992, 1993, 1994, 1995, 1996, 1997, 1998, 1999, 2000, 2001, 2002, 2003, 2004, 2005, 2006, 2007, 2008, 2009, 2010, 2011 Free Software Foundation, Inc. Permission is granted to copy, distribute and/or modify this document under the terms of the GNU Free Documentation License, Version 1.3 or any later version published by the Free Software Foundation; with no Invariant Sections, with no Front-Cover Texts, and with no Back-Cover Texts. A copy of the license is included in the section entitled "GNU Free Documentation License". binutils-2.21.53-system 2011-12-23 ELFEDIT(1)
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