HPCBIOS_2012-90.rst

HPCBIOS_2012-90: Software Tools and Development Environment

Note

Software Development environment includes a set of tools which are needed for building and using scientific computing software. The following is an attempt to define which ones are relevant for the HPCBIOS communities and set an action plan.

• BC Policy: HPCBIOS_2012-90
• Date of Policy: 2012-12-15

The main objective of this policy is to provide the following common productivity environment across any HPCBIOS resources:

Name	Prefered version(s)	Compliance level	Subcategory
bash sh tcsh ksh csh zsh	latest	MUST	unix shells
vim emacs nano ed sed	latest	SHOULD	editors / stream editors
coreutils bc par grep gawk findutils parallel	latest	SHOULD	GNU variations of common Unix tools
more less screen script tmux	latest	SHOULD	user interaction
man help2man texinfo par	latest	SHOULD	online help
zlib openssl openssh	latest	SHOULD	zlib/openssl are typically required allover
wget curl lynx links rsync unison ftp lftp bbcp	latest	SHOULD	downloaders / file fetchers
subversion rcs cvs git	latest	SHOULD	version control
ssh ldap nfs nscd telnet netcat ntp ntpdate	latest	SHOULD	system interconnection essentials
strace ltrace lsof finger pwgen procps fuser who	latest	SHOULD	process & user inspection
dstat sysstat iotop htop host ifconfig arp iptraf	latest	SHOULD	system inspection tools
nmap tcpdump dig bind-utils whois icmpinfo	latest	SHOULD	network inspection tools
ping traceroute ping6 traceroute6 tcptrace mtr ss	latest	SHOULD	network diagnostics - basics
iperf nuttcp bwctl ndp ndt thrulay vnstat	latest	SHOULD	network diagnostics - extras
patch diff diffstat m4	latest	SHOULD	patching & macros
bzip2 zip unzip pax arc lzip rzip cpio tar gzip	latest	SHOULD	archivers
dmidecode lspci blkid fdisk hdparm ethtool	latest	SHOULD	hardware & devices inspection
make cmake autoconf automake autotools	latest	SHOULD	build tools
yasm nasm dev86 elfutils	latest	SHOULD	assembly tools
bison byacc flex	latest	SHOULD	parsing tools
GMP MPFR MPC PPL antlr expect	latest	MUST	http://gcc.gnu.org/install/prerequisites.html
gcc g++	v4.4.x OR v4.6.x	MUST	gcc compiler: http://gcc.gnu.org
g77 gfortran libf2c libc6-prof libgfortran3	latest	SHOULD	compiler related
libtool libltdl-dev ia32-libs	latest	SHOULD	lib or arch related
gdb valgrind gprof oprofile time objdump	latest	SHOULD	debugging, profiling, timing
makeself.sh mc	latest	SHOULD	misc platform
libstdc++	latest	MAY	base c++ libraries
ncurses ncurses-dev	latest	SHOULD	tui development
binutils-dev libssl-dev libtiff4-dev libsm-dev	latest	SHOULD	devel libs
libmysqlclient-dev libpng12-dev libpq-dev	latest	SHOULD	devel libs, part II
xutils-dev libx11-dev libxt-dev	latest	SHOULD	devel, X related
x11proto-xext-dev libxext-dev libqt4-dev	latest	SHOULD	devel, X related, part II
tk gtk2 QT	latest	SHOULD	X related
asciidoc doxygen doxygen-doc graphviz	latest	SHOULD	documentation related
sqlite3 sqlite3-dev	latest	SHOULD	db
python ruby ri perl ipython ocaml tcl	latest	SHOULD	scripting & prototyping
pychecker pyflakes pylint	latest	SHOULD	python code checkers
python-git python-svn	latest	SHOULD	scripting integration with SCM
python-setuptools	latest	SHOULD	python-setuptools
openjdk / java	v1.6.0 or later	MAY	java SDK/Sun JDK
openmpi mpich2 mpich mvapich intelmpi	latest	MAY	mpi stacks
environment-modules	v3.2.10 or later	MAY	env. modules (Tcl/C)
lmod	v5.9.0 or later	MAY	env. modules (lua/lmod)
lsb lsb-release	latest	MAY	Linux Standard Base

This productivity environment will be supplemented with other related tools.

Potential sources of information for future upgrades of this list include:

• http://wiki.gumstix.org/index.php?title=Build_Environment_openSUSE_11.0
• http://www.grid5000.fr/mediawiki/index.php/FC11_Tlse
• http://sebastien.dinot.free.fr/liens_dev_c_cpp.html

Kindly notify -if this policy is inadequate for your work- both your local site technical representative & HPCBIOS maintainers.