Åke Sandgren <[email protected]> writes:
> What does your hooks look like?
def pre_configure_hook(self, *args, **kwargs):
"""Pre-configure hook"""
# Build RStan with threading
##################################################
if self.name == 'RStan':
self.cfg['buildopts'] = self.cfg['buildopts'] \
+ 'CXX14FLAGS="$CXX14FLAGS -DSTAN_THREADS"'
self.log.info("[pre-build hook] Added -DSTAN_THREADS to CXX14FLAGS to
buildopts")
return
def pre_extensions_hook(self, *args, **kwargs):
"""Pre-extensions hook"""
# Build RStan with threading
##################################################
if self.name == 'RStan':
self.cfg['buildopts'] = self.cfg['buildopts'] \
+ 'CXX14FLAGS="$CXX14FLAGS -DSTAN_THREADS"'
self.log.info("[pre-extensions hook] Added -DSTAN_THREADS to
CXX14FLAGS to buildopts")
return
I have also tried this with CXXFLAGS.
In my own copy of the EC I have tried various things:
#preconfigopts = "-DSTAN_THREADS"
#buildopts = "-DSTAN_THREADS"
#preconfigopts = 'CXXFLAGS="$CXXFLAGS -DSTAN_THREADS" '
#buildopts = 'CXXFLAGS="$CXXFLAGS -DSTAN_THREADS" '
buildopts = ' -DSTAN_THREADS CC="$CC" FC="$F77"'
My impression is that none of these things affect the way the R packages
are build.
Cheers,
Loris
> And in what hook are you trying to do this? (Which i'll see when you
> show me the hook ...)
>
> On 11/27/19 10:19 AM, Loris Bennett wrote:
>> Hi Åke,
>>
>> Åke Sandgren <[email protected]> writes:
>>
>>> You might need to add it to the configopts (preconfigopts). Not sure
>>> which steps that easyconfig/block is going through.
>>
>> I have tried tweaking the EC directly with
>>
>> preconfigopts = 'CXXFLAGS="$CXXFLAGS -DSTAN_THREADS" '
>>
>> but this doesn't help. In the log I see
>>
>> == 2019-11-27 10:01:00,566 easyconfig.py:583 INFO setting easyconfig
>> parameter preconfigopts: value CXXFLAGS="$CXXFLAGS -DSTAN_THREADS"
>> (type: <type 'str'>)
>>
>> but subsequently
>>
>> == 2019-11-27 10:01:01,750 environment.py:97 INFO Environment variable
>> CXXFLAGS set to -O2 -ftree-vectorize -march=native -fno-math-errno
>> (previously undefined)
>>
>> A heavy-handed approach would seem to be redefining the default value of
>> CXXFLAGS global. Is that possible?
>>
>> Otherwise it looks like I'll have to patch the Makefiles in the sources.
>>
>> Cheers,
>>
>> Loris
>>
>>> On 11/21/19 10:05 AM, Loris Bennett wrote:
>>>> Loris Bennett <[email protected]> writes:
>>>>
>>>>> Hi,
>>>>>
>>>>> I am trying to install
>>>>>
>>>>> RStan-2.18.2-foss-2018b-R-3.5.1.eb
>>>>>
>>>>> with the additional compiler flag:
>>>>>
>>>>> -DSTAN_THREADS
>>>>>
>>>>> I want to us a hook and tried
>>>>>
>>>>> def pre_configure_hook(self, *args, **kwargs):
>>>>>
>>>>> """Pre-build hook"""
>>>>>
>>>>> # Build RStan with threading
>>>>> ##################################################
>>>>> if self.name == 'RStan':
>>>>> self.cfg['buildopts'] = self.cfg['buildopts'] \
>>>>> + 'CXXFLAGS="$CXXFLAGS -DSTAN_THREADS"'
>>>>> self.log.info("[pre-build hook] Added -DSTAN_THREADS to
>>>>> CXXFLAGS to buildopts")
>>>>> return
>>>>>
>>>>> In the log file I can see that the hooks is called, but the flag
>>>>> doesn't seem to be used.
>>>>>
>>>>> What am I doing wrong?
>>>>
>>>> I have also tried adding
>>>>
>>>> buildopts = "-DSTAN_THREADS"
>>>>
>>>> to my own copy of the easyconfig. This does appear in
>>>> the log file has having been set:
>>>>
>>>> == 2019-11-21 09:20:23,543 easyconfig.py:583 INFO setting easyconfig
>>>> parameter buildopts: value -DSTAN_THREADS (type: <type 'str'>)
>>>>
>>>> but it is not passed to the compiler. The compile lines do contain
>>>> other macros, but these are obviously coming from elsewhere:
>>>>
>>>> g++ -std=gnu++14
>>>> -I"/trinity/shared/easybuild/software/R/3.5.1-foss-2018b/lib64/R/include"
>>>> -DNDEBUG -I"../inst/include"
>>>>
>>>> -I"`"/trinity/shared/easybuild/software/R/3.5.1-foss-2018b/lib64/R/bin/Rscript"
>>>> --vanilla -e "cat(system.file('include', 'src', package =
>>>> 'StanHeaders'))"`" -DBOOST_DISABLE_ASSERTS
>>>> -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION ...
>>>>
>>>> Any ideas how I could insert "-DSTAN_THREADS"? Or can this kind of
>>>> thing only be done by patching the Makefile?
>>>>
>>>> Cheers,
>>>>
>>>> Loris
>>>>
>>>> --
>>>> Dr. Loris Bennett (Mr.)
>>>> ZEDAT, Freie Universität Berlin Email [email protected]
>>>>
--
Dr. Loris Bennett (Mr.)
ZEDAT, Freie Universität Berlin Email [email protected]
