Running a Sage file

asked 2014-10-19 08:34:18 +0200

This post is a wiki. Anyone with karma >750 is welcome to improve it.

I want to run the following program (DGHV crypto system) using Sage.

https://github.com/coron/fhe

I put all the files into a directory called the-master and ran the following commands. First,

sage: load_attach_path("/Users/my_name/Desktop/fhe-master/")

sage: load("dghv.sage")

But then it gives me the following error.

Compiling /Users/my_name/Desktop/fhe-master/scalprod.spyx... Error compiling cython file: Error compiling /Users/my_name/Desktop/fhe-master/scalprod.spyx: running build running build_ext building '_Users_my_name_Desktop_fhe_master_scalprod_spyx_24' extension gcc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -I/Applications/Sage-6.3.app/Contents/Resources/sage/local/include/csage -I/Applications/Sage-6.3.app/Contents/Resources/sage/local/include -I/Applications/Sage-6.3.app/Contents/Resources/sage/local/include/pytho\ n2.7 -I/Applications/Sage-6.3.app/Contents/Resources/sage/local/lib/python/si\ te-packages/numpy/core/include -I/Applications/Sage-6.3.app/Contents/Resources/sage/src/sage/ext -I/Applications/Sage-6.3.app/Contents/Resources/sage/src -I/Applications/Sage-6.3.app/Contents/Resources/sage/src/sage/gsl -I/Users/Sudharaka/Desktop/fhe-master -I/Applications/Sage-6.3.app/Contents/Resources/sage/local/include/pytho\ n2.7 -c _Users_my_name_Desktop_fhe_master_scalprod_spyx_24.c -o build/temp.macosx-10.7-x86_64-2.7/_Users_my_name_Desktop_fhe_master_sc\ alprod_spyx_24.o -w -O2

In file included from /Applications/Sage-6.3.app/Contents/Resources/sage/local/bin/../lib/gcc/\ x86_64-apple-darwin11.4.2/4.7.3/include-fixed/syslimits.h:7:0, from /Applications/Sage-6.3.app/Contents/Resources/sage/local/bin/../lib/gcc/\ x86_64-apple-darwin11.4.2/4.7.3/include-fixed/limits.h:34, from /Applications/Sage-6.3.app/Contents/Resources/sage/local/include/python2\ .7/Python.h:19, from _Users_my_name_Desktop_fhe_master_scalprod_spyx_24.c:16: /Applications/Sage-6.3.app/Contents/Resources/sage/local/bin/../lib/gcc/\ x86_64-apple-darwin11.4.2/4.7.3/include-fixed/limits.h:169:61: fatal error: limits.h: No such file or directory compilation terminated. error: command 'gcc' failed with exit status 1

Can anybody please prove me some insight on what is going wrong here?

Thank you.

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2 Answers

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answered 2014-10-20 11:50:01 +0200

vdelecroix
7397 ●19 ●81 ●164 http://www.labri.fr/pe...

Hello,

There is an error in the file scalprod.spyx. Edit it and change the line

from libc.stdlib cimport calloc

with

from libc.stdlib cimport calloc, free

Then, I was able to compile the file and run the test.

Vincent

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answered 2014-10-21 19:12:10 +0200

psedorandom
3 ●1 ●3

Thanks much for your answer. I edited the file as you suggested but then I get the following error message. It seems to me that the error message says that the limits.h header file is missing. Probably it's not pointing to the correct C header files. I would really appreciate if you can give any suggestions to correct this error.

Compiling /Users/my_name/Desktop/fhe-master/scalprod.spyx... Error compiling cython file: Error compiling /Users/my_name/Desktop/fhe-master/scalprod.spyx: running build running build_ext building '_Users_my_name_Desktop_fhe_master_scalprod_spyx_0' extension creating build creating build/temp.macosx-10.7-x86_64-2.7 gcc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -I/Applications/Sage-6.3.app/Contents/Resources/sage/local/include/csage -I/Applications/Sage-6.3.app/Contents/Resources/sage/local/include -I/Applications/Sage-6.3.app/Contents/Resources/sage/local/include/pytho\ n2.7 -I/Applications/Sage-6.3.app/Contents/Resources/sage/local/lib/python/si\ te-packages/numpy/core/include -I/Applications/Sage-6.3.app/Contents/Resources/sage/src/sage/ext -I/Applications/Sage-6.3.app/Contents/Resources/sage/src -I/Applications/Sage-6.3.app/Contents/Resources/sage/src/sage/gsl -I/Users/Sudharaka/Desktop/fhe-master -I/Applications/Sage-6.3.app/Contents/Resources/sage/local/include/pytho\ n2.7 -c _Users_my_name_Desktop_fhe_master_scalprod_spyx_0.c -o build/temp.macosx-10.7-x86_64-2.7/_Users_my_name_Desktop_fhe_master_sc\ alprod_spyx_0.o -w -O2

In file included from /Applications/Sage-6.3.app/Contents/Resources/sage/local/bin/../lib/gcc/\ x86_64-apple-darwin11.4.2/4.7.3/include-fixed/syslimits.h:7:0, from /Applications/Sage-6.3.app/Contents/Resources/sage/local/bin/../lib/gcc/\ x86_64-apple-darwin11.4.2/4.7.3/include-fixed/limits.h:34, from /Applications/Sage-6.3.app/Contents/Resources/sage/local/include/python2\ .7/Python.h:19, from _Users_my_name_Desktop_fhe_master_scalprod_spyx_0.c:16: /Applications/Sage-6.3.app/Contents/Resources/sage/local/bin/../lib/gcc/\ x86_64-apple-darwin11.4.2/4.7.3/include-fixed/limits.h:169:61: fatal error: limits.h: No such file or directory compilation terminated. error: command 'gcc' failed with exit status 1

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Do not use an answer to ask a new question. It is better to reedit the question itself. To answer your question, I have no idea. How did you install Sage ? Did you compile from source ?

vdelecroix ( 2014-10-21 19:38:57 +0200 )edit

I am sorry, I don't know much about this forum and this is the first time I am using it. I will reedit the questions in the future. I didn't compile from source. I am using Sage 6.3 on a Mac and I used the Sage.app to instal it. What version of Sage did you use by the way?

psedorandom ( 2014-10-21 19:58:07 +0200 )edit

The fact that you did not compile from source can possibly be the problem. Did you try to run simpler cython code?

vdelecroix ( 2014-10-21 20:24:08 +0200 )edit

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