SOM-IT installation error

[vasil...@gmail.com]

Hi
I tried to install the SOM-it package on my ScientificLinux 6.3 machine and I got the following error:

sudo make
/usr/bin/g++ -c som-it.cpp
som-it.cpp: In function ‘int main(int, const char**)’:
som-it.cpp:38: error: ‘atoi’ was not declared in this scope
som-it.cpp:51: error: ‘atof’ was not declared in this scope
som-it.cpp:70: error: ‘atof’ was not declared in this scope
make: *** [som-it.o] Error 1

The g++ compiler is there, and paths have been checked. Any ideas what's wrong?

Kind Regards

Basil

[Hans De Winter]

Hi Basil,

it could be that your compiler requires different types of include definitions. Could you try to add the following line:

#include <stdlib.h>

after the already existing line:

#include <cstdlib.h>

so that it becomes:

#include <cstdlib.h>

#include <stdlib.h>

and let me know?

Thx,

Hans

www.silicos-it.com

A division of Imacosi bvba
De Roskam 35,
2970 Schilde
Belgium

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[vasil...@gmail.com]

Hi Hans,
Thanks for your suggestion. It was close to the solution but not exactly.

The som-it.cpp file (as downloaded) does not contain any of the headers you mentioned.

But when i added

#include <cstdlib>

It compiled. I think the "#include <stdlib.h>" header is for C language programs.

It would be great if you double check. I will move on testing following the rest of the instructions and report back if the compiled file works as expected.

Regards

Basil

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[Hans De Winter]

Basil,

you are right: the downloaded file does not contain the header file. I'll update it.

Thx,

Hans

www.silicos-it.com

A division of Imacosi bvba
De Roskam 35,
2970 Schilde
Belgium

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[vasil...@gmail.com]

Hans
BTW you mention in your documentation that you used your spectrophore fingerprint and the SOM package to project chemicals available from vendors.
So I was wondering what the format of the file you submitted to the SOM software to perform this analysis ? Basically my question is what the spectrophore fingeprint format is ?
Is it binary, list of tab delimited integers or what ?
I do not have access to them but I have access to plenty of standard and novel fingerprints to play with and test the performance of the SOM software. I just need to know what the acceptable format of the file to be submitted for the training.

Also I will contact you with the private message to discuss using this type of work to the are of research I work at he moment.

Kind Regards

Basil

[Hans De Winter]

Basil,

the Spectrophore format is a series of 48 numbers (real number, no integers) for each molecule.

Regards,

Hans

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[vasil...@gmail.com]

Hi Hans
Thats great thanks
Basil