Dina, I'm not running any package managers or antivirus software on my
Macbook. The only third-party software that might be relevant is the Github
desktop client.
My installation of OS X is very standard. No additional partitions or
virtual environments. Straight from the box setup.
On Sunday, May 29, 2016 at 11:10:51 PM UTC-7, Dima Pasechnik wrote:
>
> Certainly, there is something unusual about your system/setup; that's why
> I asked whether you have anything like homebrew (and, perhaps, an
> antivirus?) installed. Have you?
>
> As well, does /Users/Masson/ live on some non-standard file system?
>
> Thanks,
> Dima
>
> On Monday, May 30, 2016 at 1:57:41 AM UTC+1, paulmasson wrote:
>>
>> Volker, the line you have in logs/install.log does not exist for me when
>> the build halts. Just this:
>>
>> $ egrep -r partitions_c.h logs/install.log
>>
>> logs/install.log:/Users/Masson/downloads/github/sage/src/build/cythonized
>> /sage/combinat/partitions.cpp:323:26: fatal error: partitions_c.h: No
>> such file or directory
>>
>> logs/install.log: #include "partitions_c.h"
>>
>> I'll save a copy of the install log at the point of halting if you want
>> that as well.
>>
>> There is no sagelib7.3-beta*.log when the build halts. Attaching
>> sagelib-7.2.log instead if that helps.
>>
>> When the build halts I cannot run Sage to give you the other output. In
>> the working version of 7.2, the output of the indicated commands is exactly
>> the same as yours, but that is because I manually made sure the missing
>> files were put in place.
>>
>> These nine files are just not getting copied during the build on my
>> machine.
>>
>>
>> On Sunday, May 29, 2016 at 4:11:41 PM UTC-7, Volker Braun wrote:
>>>
>>> These are copied during the build process:
>>>
>>> $ egrep -r partitions_c.h logs/install.log
>>> copying
>>> /home/vbraun/Sage/git-develop/src/build/cythonized/sage/combinat/partitions_c.h
>>>
>>> ->
>>> /home/vbraun/Sage/git-develop/local/lib/python2.7/site-packages/sage/combinat
>>>
>>> Can you post your logs/pkgs/sagelib-7.3.beta2.log and whats the output
>>> of
>>>
>>> sage: from sage_setup.find import find_extra_files
>>> sage: from sage.env import SAGE_SRC, SAGE_CYTHONIZED
>>> sage: find_extra_files(["sage.combinat"], SAGE_SRC, SAGE_CYTHONIZED, ".")
>>> [('./sage/combinat',
>>> ['/home/vbraun/Code/sage/src/sage/combinat/combinat_cython.pxd',
>>>
>>> '/home/vbraun/Code/sage/src/sage/combinat/enumeration_mod_permgroup.pxd',
>>> '/home/vbraun/Code/sage/src/sage/combinat/permutation_cython.pxd',
>>>
>>>
>>> '/home/vbraun/Code/sage/src/build/cythonized/sage/combinat/partitions_c.h'])]
>>>
>>>
>>>
>>> On Monday, May 30, 2016 at 12:02:31 AM UTC+2, paulmasson wrote:
>>>>
>>>> Turns out this issue has nothing to do with the Github copy. I
>>>> downloaded a 7.2 tarball and had the same issue a total of nine times.
>>>> Here
>>>> are the successive error messages:
>>>>
>>>> /Users/Masson/desktop/sage/src/build/cythonized/sage/combinat/partitions.cpp:323:26:
>>>>
>>>> fatal error: partitions_c.h: No such file or directory
>>>>
>>>> #include "partitions_c.h"
>>>>
>>>> /Users/Masson/desktop/sage/src/build/cythonized/sage/combinat/matrices/dancing_links.cpp:319:29:
>>>>
>>>> fatal error: dancing_links_c.h: No such file or directory
>>>>
>>>> #include "dancing_links_c.h"
>>>>
>>>> /Users/Masson/desktop/sage/src/build/cythonized/sage/graphs/base/boost_graph.cpp:314:31:
>>>>
>>>> fatal error: boost_interface.cpp: No such file or directory
>>>>
>>>> #include "boost_interface.cpp"
>>>>
>>>> /Users/Masson/desktop/sage/src/build/cythonized/sage/libs/ecl.c:324:20:
>>>> fatal error: eclsig.h: No such file or directory
>>>>
>>>> #include "eclsig.h"
>>>>
>>>> /Users/Masson/desktop/sage/src/build/cythonized/sage/libs/ppl.cpp:336:23:
>>>> fatal error: ppl_shim.hh: No such file or directory
>>>>
>>>> #include "ppl_shim.hh"
>>>>
>>>> /Users/Masson/desktop/sage/src/build/cythonized/sage/libs/eclib/mwrank.cpp:356:20:
>>>>
>>>> fatal error: wrap.cpp: No such file or directory
>>>>
>>>> #include "wrap.cpp"
>>>>
>>>> /Users/Masson/desktop/sage/src/build/cythonized/sage/matroids/matroid.c:296:22:
>>>>
>>>> fatal error: minorfix.h: No such file or directory
>>>>
>>>> #include "minorfix.h"
>>>>
>>>> /Users/Masson/desktop/sage/src/build/cythonized/sage/misc/darwin_utilities.c:290:33:
>>>>
>>>> fatal error: darwin_memory_usage.h: No such file or directory
>>>>
>>>> #include "darwin_memory_usage.h"
>>>>
>>>> /Users/Masson/desktop/sage/src/build/cythonized/sage/symbolic/pynac.cpp:334:22:
>>>>
>>>> fatal error: pynac_cc.h: No such file or directory
>>>>
>>>> #include "pynac_cc.h"
>>>>
>>>> After each failed build I manually copied each missing file to the
>>>> appropriate directory and ran 'make' again. I now have a running build of
>>>> 7.2. Yippee!
>>>>
>>>> A friend has suggested that the errors might be caused by bad line
>>>> endings that only show up on a Mac. Any other explanations for such
>>>> apparently random behavior?
>>>>
>>>>
>>>> On Saturday, May 28, 2016 at 5:55:04 PM UTC-7, paulmasson wrote:
>>>>>
>>>>> Running OS X El Capitan on a year-old Macbook.
>>>>>
>>>>> Deleted my entire Sage directory. Did a clean clone from
>>>>> github.com/sagemath/sage.git. Immediately changed to Sage directory
>>>>> and ran make. Same error as previously:
>>>>>
>>>>> error: command 'gcc' failed with exit status 1
>>>>>
>>>>> /Users/Masson/downloads/github/sage/src/build/cythonized/sage/combinat/partitions.cpp:323:26:
>>>>>
>>>>> fatal error: partitions_c.h: No such file or directory
>>>>>
>>>>> #include "partitions_c.h"
>>>>>
>>>>> ^
>>>>>
>>>>> compilation terminated.
>>>>>
>>>>> make[3]: *** [sage] Error 1
>>>>>
>>>>>
>>>>> Is there a problem building from the github copy?
>>>>>
>>>>
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