Free how to run faster software for linux

Atomorun project is an OpenGL Jump&Run clone.
In Atomorun, the character "Atomio" has to escape from an exploding nuclear bomb. The shockwave tries to catch you, so run as fast as you can!
It uses 3D OpenGL for the graphics, while the gameplay is 2D (just jump and run as fast as you can, left to right)
Enhancements:
- Forgot to put the body in a displaylist also...
- The glasses are black again (ooops)
- It is now possible to leave the "game over"-screen with a press on ENTER
- The level is now generated randomly and a little bit larger. Makes it much more difficult :)
- Redesigned the menu.
- Some code cleanup
- Added the acid fog, from which Atomio has to run away.
- Fixed bug, where you could change the direction of Atomio in the menu.
- Sound support added. (New dependency: SDL_mixer with ogg support)
- Textures are now stored in smaller and better PNGs. (New dependency: SDL_image with png support)
- If loading a PNG (or OGG) fails, it tries to load a BMP (or WAV). See docsINSTALL.win32, why. Grrr, why do I have to make a win32 build?
- Fixed menu bug. It was possible to press Escape in the menu after playing the game.
- Its now possible to change resolution and fullscreen mode with commandline arguments. Start "atomorun -h" for more help.

Run a web server inside LAN is a simple script to run a WWW server inside a Local Area Network. Run a web server inside LAN script assume all iptables features are compiled statically in the kernel, or all modules are loaded.

Otherwise you may encounter some surprises trying to utilize the more featureful and creative commandlines that Ive come up with.

Sample:

#external and internal interfaces
EXT=eth0
INT=eth1

# clear everything, and create my cascading chains
iptables -F
iptables -N e0
iptables -N tcpin
iptables -N udpin

# e0 is the name of our chain for eth0
iptables -I INPUT -i $EXT -j e0

# OUTPUT Chain
iptables -A OUTPUT -o $EXT -j DROP -p icmp --icmp-type ! echo-request

# remote gnutella queries were really pissing me off one day
# iptables -A OUTPUT -o $EXT -j DROP -p tcp ! --syn --dport 6346
# iptables -A OUTPUT -o $EXT -j DROP -p tcp ! --syn --sport 6346

# $EXT Chain
# a single rule to accept SYN Packets for multiple ports (up to 15)
iptables -A tcpin -j ACCEPT -p tcp --syn -m multiport --destination-ports 873,993,995,143,80,113,21,22,23,25,53

# stateful connection tracking is wonderful stuff
# ESTABLISHED tcp connections are let through
# If we send a SYN out, the ACK is seen as RELATED
# then further communication is accepted by the ESTABLISHED rule
iptables -A e0 -j ACCEPT -m state --state ESTABLISHED
iptables -A e0 -j ACCEPT -m state --state RELATED

# certain ports I simply DROP
iptables -A tcpin -j DROP -p tcp --syn -m multiport --destination-ports 6346,139

# UDP rules...
iptables -A udpin -j DROP -p udp -m multiport --destination-ports 137,27960

# I run a DNS server, so we must accept UDP packets on port 53
iptables -A udpin -j ACCEPT -p udp -m state --state NEW --destination-port 53

# lets log NEW udp packets on ports 1024:65535, then let them through
iptables -A udpin -j LOG -p udp -m state --state NEW --destination-port 1024:65535 --log-level debug --log-prefix UDPNEW --log-ip-options
iptables -A udpin -j ACCEPT -p udp -m state --state NEW --destination-port 1024:65535

# lets log NEW tcp packets on ports 1024:65535, then let them through
iptables -A tcpin -j LOG -p tcp --syn --destination-port 1024:65535 --log-level debug --log-prefix TCPNEW --log-tcp-options --log-ip-options
iptables -A tcpin -j ACCEPT -p tcp --syn --destination-port 1024:65535

# lets log INVALID or NEW tcp packets on priveleged ports, then DROP
# (remember I have certain ACCEPT rules higher up the chain)
iptables -A tcpin -j LOG -p tcp -m state --state INVALID,NEW --destination-port 1:1023 --log-level warn --log-prefix TCPPRIV --log-tcp-options --log-ip-options
iptables -A tcpin -j DROP -p tcp -m state --state INVALID,NEW --destination-port 1:1023

iptables -A e0 -p tcp -j tcpin
iptables -A e0 -p udp -j udpin
iptables -A e0 -j LOG --log-level debug --log-prefix NETFILTER --log-ip-options -m state --state INVALID,NEW
iptables -A e0 -j DROP

# NAT Rules
# I run a web server inside...
iptables -t nat -A PREROUTING -p tcp -i eth0 --dport 80 -j DNAT --to-destination 192.168.1.4:80

Bio::Tools::Run::TribeMCL is a method for clustering proteins into related groups, which are termed protein families.
SYNOPSIS
use Bio::Tools::Run::TribeMCL;
use Bio::SearchIO;
# 3 methods to input the blast results
# straight forward raw blast output (NCBI or WU-BLAST)
my @params = (inputtype=>blastfile);
# OR
# markov program format
# protein_id1 protein_id2 evalue_magnitude evalue_factor
# for example:
# proteins ENSP00000257547 and ENSP00000261659
# with a blast score evalue of 1e-50
# and proteins O42187 and ENSP00000257547
# with a blast score evalue of 1e-119
# entry would be
my @array = [[qw(ENSP00000257547 ENSP00000261659 1 50)],
[qw(O42187 ENSP00000257547 1 119)]];
my @params = (pairs=>@array,I=>2.0);
# OR
# pass in a searchio object
# slowest of the 3 methods as it does more rigourous parsing
# than required for us here
my $sio = Bio::SearchIO->new(-format=>blast,
-file=>blast.out);
my @params=(inputtype=>searchio,I=>2.0);
# you can specify the path to the executable manually in the following way
my @params=(inputtype=>blastfile,I=>2.0,
mcl=>/home/shawn/software/mcl-02-150/src/shmcl/mcl,
matrix=>/home/shawn/software/mcl-02-150/src/contrib/tribe/tribe-matrix);
my $fact = Bio::Tools::Run::TribeMCL->new(@params);
# OR
$fact->matrix_executable(/home/shawn/software/mcl-02-150/src/contrib/tribe/tribe-matrix);
$fact->mcl_executable(/home/shawn/software/mcl-02-150/src/shmcl/mcl);
# to run
my $fact = Bio::Tools::Run::TribeMCL->new(@params);
# Run the program
# returns an array reference to clusters where members are the ids
# for example :2 clusters with 3 members per cluster:
# $fam = [ [mem1 mem2 mem3],[mem1 mem2 mem3]]
# pass in either the blastfile path/searchio obj/the array ref to scores
my $fam = $fact->run($sio);
# print out your clusters
for (my $i = 0; $i
print "Cluster $i t ".scalar(@{$fam->[$i]})." membersn";
foreach my $member (@{$fam->[$i]}){
print "t$membern";
}
}
This clustering is achieved by analysing similarity patterns between proteins in a given dataset, and using these patterns to assign proteins into related groups. In many cases, proteins in the same protein family will have similar functional properties.
Enhancements:
- Perl

Bio::Tools::Run::JavaRunner is a Perl module that can run java programs.

SYNOPSIS

my $runner = Bio::Tools::Run::JavaRunner->new(-jar => $jar);
$runner->run();

This module is probably incomplete. It is intended to be a wrapper for running java programs.