Thanks Jack
With your suggestion I checked and yes only the GCCcore/8.2.0 module was
included by the Python/2.7.15-GCCcore-8.2.0 module - so no binutils.
Everything works if I load the binutils modules. To me it seems like a
strange choice not to load binutils along with the GCCcore I am struggling
to think of an example of when it would be necessary or desirable not to
have the accompanying binutils available. Am I missing something obvious?
Mikael - thanks for the suggestions. I think option 1. is beyond my skill
set at the moment, but I will try option 2.
Many Thanks,
-Alastair
On Fri, 19 Jul 2019 at 14:05, Mikael Öhman <micket...@gmail.com> wrote:
> Just to expand on what Jack wrote; these errors comes from trying to link
> code from a very new compiler with the (old) system ld.
>
> EasyConfigs have both build-dependencies, and (runtime) dependencies. When
> you load the module normally, you only get the latter. binutils is such a
> build-dep, but there are others as well (but probably nothing that
> specifically affects pycurl).
>
> Rather than using pip install directly, I would recommend you either
> 1. Create a new EasyConfig, and install it separately (using the
> PythonPackage easyblock)
> 2. Copy Python-2.7.15-GCCcore-8.2.0.eb, add pycurl to the list of
> extensions, and do a
> eb Python-2.7.15-GCCcore-8.2.0.eb --skip --rebuild
>
> (and then submit your work as a pull request on github)
>
> Best regards, Mikael
>
> On Fri, Jul 19, 2019 at 7:27 PM Alastair Neil <ajneil.t...@gmail.com>
> wrote:
>
>> Hi
>>
>> I am new to easybuild. I just installed version 3.9.3 on a centos
>> 7.6.1810 system. I first built the foss 2019a toolchain using:
>>
>> > eb foss-2019a.eb -r
>>>
>>
>> This completed with mo obvious issues. I then built python 2.7.15 using:
>>
>> > eb Python-2.7.15-GCCcore-8.2.0.eb -r
>>>
>>
>> This too seemed to complete without issue.
>>
>> I then tried to install a module using pip:
>>
>> > module load Python/2.7.15-GCCcore-8.2.0
>>> > pip -v install pycurl
>>>
>>
>> this dies with:
>>
>> Command
>>> "/opt/apps/easybuild/software/Python/2.7.15-GCCcore-8.2.0/bin/python -u -c
>>> "import setuptools,
>>> tokenize;__file__='/tmp/pip-install-mX9yps/pycurl/setup.py';f=getattr(tokenize,
>>> 'open', open)(__file__);code=f.read().replace('\r\n',
>>> '\n');f.close();exec(compile(code, __file__, 'exec'))" --with-openssl
>>> install --record /tmp/pip-record-Ui6qsC/install-record.txt
>>> --single-version-externally-managed --compile" failed with error code 1 in
>>> /tmp/pip-install-mX9yps/pycurl/
>>>
>>
>> The issue seems to be an assembler error:
>>
>> gcc -fno-strict-aliasing -O2 -ftree-vectorize -march=native
>>> -fno-math-errno -fPIC -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes
>>> -fPIC -DPYCURL_VERSION="7.43.0.3" -DHAVE
>>> _CURL_SSL=1 -DHAVE_CURL_OPENSSL=1 -DHAVE_CURL_SSL=1
>>> -DHAVE_CURL_OPENSSL=1 -DHAVE_CURL_SSL=1
>>> -I/opt/apps/easybuild/software/Python/2.7.15-GCCcore-8.2.0/include/python2.7
>>> -c src/
>>> easy.c -o build/temp.linux-x86_64-2.7/src/easy.o
>>> /tmp/ccOJ03YM.s: Assembler messages:
>>> /tmp/ccOJ03YM.s:15: Error: unknown .loc sub-directive `view'
>>> /tmp/ccOJ03YM.s:15: Error: junk at end of line, first unrecognized
>>> character is `-'
>>> /tmp/ccOJ03YM.s:17: Error: unknown .loc sub-directive `view'
>>> /tmp/ccOJ03YM.s:17: Error: unknown pseudo-op: `.lvu1'
>>> /tmp/ccOJ03YM.s:20: Error: unknown .loc sub-directive `view'
>>> /tmp/ccOJ03YM.s:20: Error: unknown pseudo-op: `.lvu2'
>>> /tmp/ccOJ03YM.s:23: Error: unknown .loc sub-directive `view'
>>> /tmp/ccOJ03YM.s:23: Error: unknown pseudo-op: `.lvu3'
>>>
>> .... many more similar lines deleted....
>>>
>>
>> any pointers welcome as to how to resolve this.
>>
>> --Thanks
>>
>> Alastair
>>
>>
>>
>>
>>
