the pair program and I-TASSER program run

I am having issues with the runI-TASSER.pl and, therefore, I ran the steps one by one. I figured out that the pair files were not getting created.

I tried to run the pair program separately but the program is getting "killed" by the system. This means that the pair program is either utilizing excessive memory resources or it is coded really bad. The worst part is pair program is an executable file and no details of the program is given.
Also, whatever executable is run, none of them generate a log file to understand what is going on.

Below is what I ran and is the log:

[rzb12@lionxc ITGSU0518]$ ./pair /gpfs/home/rzb12/work/I-TASSER2.1/
30000 6379375 total lib str & residues
Killed
[rzb12@lionxc ITGSU0518]$

It is clearly not a memory issue with the computer on which I am running this program. Below summarizes enough memory available.

[rzb12@lionxc ITGSU0518]$ free -m
total used free shared buffers cached
Mem: 15794 7515 8278 0 197 1182
-/+ buffers/cache: 6136 9658
Swap: 2047 0 2047

Also, below are the full details of the computer:

[rzb12@lionxc ITGSU0518]$ cat /proc/cpuinfo
processor : 0
vendor_id : GenuineIntel
cpu family : 6
model : 15
model name : Intel(R) Xeon(R) CPU 5160 @ 3.00GHz
stepping : 6
cpu MHz : 2992.497
cache size : 4096 KB
physical id : 0
siblings : 2
core id : 0
cpu cores : 2
apicid : 0
fpu : yes
fpu_exception : yes
cpuid level : 10
wp : yes
flags : fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush dts acpi mmx fxsr sse sse2 ss ht tm syscall nx lm constant_tsc pni monitor ds_cpl vmx est tm2 ssse3 cx16 xtpr lahf_lm
bogomips : 5984.99
clflush size : 64
cache_alignment : 64
address sizes : 36 bits physical, 48 bits virtual
power management:

processor : 1
vendor_id : GenuineIntel
cpu family : 6
model : 15
model name : Intel(R) Xeon(R) CPU 5160 @ 3.00GHz
stepping : 6
cpu MHz : 2992.497
cache size : 4096 KB
physical id : 0
siblings : 2
core id : 1
cpu cores : 2
apicid : 1
fpu : yes
fpu_exception : yes
cpuid level : 10
wp : yes
flags : fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush dts acpi mmx fxsr sse sse2 ss ht tm syscall nx lm constant_tsc pni monitor ds_cpl vmx est tm2 ssse3 cx16 xtpr lahf_lm
bogomips : 5984.98
clflush size : 64
cache_alignment : 64
address sizes : 36 bits physical, 48 bits virtual
power management:

processor : 2
vendor_id : GenuineIntel
cpu family : 6
model : 15
model name : Intel(R) Xeon(R) CPU 5160 @ 3.00GHz
stepping : 6
cpu MHz : 2992.497
cache size : 4096 KB
physical id : 3
siblings : 2
core id : 0
cpu cores : 2
apicid : 6
fpu : yes
fpu_exception : yes
cpuid level : 10
wp : yes
flags : fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush dts acpi mmx fxsr sse sse2 ss ht tm syscall nx lm constant_tsc pni monitor ds_cpl vmx est tm2 ssse3 cx16 xtpr lahf_lm
bogomips : 5985.03
clflush size : 64
cache_alignment : 64
address sizes : 36 bits physical, 48 bits virtual
power management:

processor : 3
vendor_id : GenuineIntel
cpu family : 6
model : 15
model name : Intel(R) Xeon(R) CPU 5160 @ 3.00GHz
stepping : 6
cpu MHz : 2992.497
cache size : 4096 KB
physical id : 3
siblings : 2
core id : 1
cpu cores : 2
apicid : 7
fpu : yes
fpu_exception : yes
cpuid level : 10
wp : yes
flags : fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush dts acpi mmx fxsr sse sse2 ss ht tm syscall nx lm constant_tsc pni monitor ds_cpl vmx est tm2 ssse3 cx16 xtpr lahf_lm
bogomips : 5985.02
clflush size : 64
cache_alignment : 64
address sizes : 36 bits physical, 48 bits virtual
power management:

[rzb12@lionxc ITGSU0518]$

Why would the program run on the entire directory /gpfs/home/rzb12/work/I-TASSER2.1/? Should it not run on specific files? Moreover, apart from this directory being passed as the parameter to this program, it is using the files in the local tmp directory such as matrix1.comm, matrix3.comm, blosum.comm, LIST.target etc.

What I am looking for the support team is fix so that the program can be run successfully and also, if possible, the reference paper to what this pair program is doing.

can somebody pls help

can somebody pls help

memory issue

Many people have installed and run the same I-TASSER2.1 package without problems. Here is the experience from a user: http://zhanglab.ccmb.med.umich.edu/bbs/?q=node/2195 You should get some hits from it.

The pair program reads the PDB templates (under the I-TASSER2.1/PDB) and some other files (such as matrix1.comm, blosum.comm etc), which needs much memory to run. Your pair program is running and was killed later, which means that your computer does not have enough memory.

One suggestion is you should test I-TASSER with a small protein (say 30 residues) rather than big proteins to check if it was successfully installed. If you still have problem, you should ask a local expert to help you. We do not have access to your computer and can not do much for you.

Memory Requirements of the program

My local support has asked me to specify the memory requirements of the program that is being run. They have also asked me the contact person for this program (phone and email) if possible to understand the technical details much better.

I understand that with the increase in number of residues, the program is going to take more time. But question is how much memory is required? May the program isn't clearing up memory at regular intervals to utilize the system better.

Can ITASSER team provide help please?

pair program uncompiled

Can you send me the uncompiled pair program for 64bit and the compiling instructions? I am planning to modify your program so that it free up the excessive memory it is consuming.