On Saturday, March 14 2020, Andreas Tille wrote:
> On Fri, Mar 13, 2020 at 11:09:31PM +0100, Paul Gevers wrote:
>> <module>
>> raise RuntimeError(('Could not find drmaa library. Please specify
>> its ' +
>> RuntimeError: Could not find drmaa library. Please specify its full
>> path using the environment variable DRMAA_LIBRARY_PATH
>
> I've fixed this in Git. Unfortunately I get a new issue when importing
> drmaa
>
> $ python3
> Python 3.7.6 (default, Jan 19 2020, 22:34:52)
> [GCC 9.2.1 20200117] on linux
> Type "help", "copyright", "credits" or "license" for more information.
>>>> import drmaa
> Traceback (most recent call last):
> File "<stdin>", line 1, in <module>
> File
> "/home/andreas/debian-maintain/salsa/med-team/python-drmaa/drmaa/__init__.py",
> line 65, in <module>
> from .session import JobInfo, JobTemplate, Session
> File
> "/home/andreas/debian-maintain/salsa/med-team/python-drmaa/drmaa/session.py",
> line 39, in <module>
> from drmaa.helpers import (adapt_rusage, Attribute,
> attribute_names_iterator,
> File
> "/home/andreas/debian-maintain/salsa/med-team/python-drmaa/drmaa/helpers.py",
> line 36, in <module>
> from drmaa.wrappers import (drmaa_attr_names_t, drmaa_attr_values_t,
> File
> "/home/andreas/debian-maintain/salsa/med-team/python-drmaa/drmaa/wrappers.py",
> line 58, in <module>
> _lib = CDLL(libpath, mode=RTLD_GLOBAL)
> File "/usr/lib/python3.7/ctypes/__init__.py", line 364, in __init__
> self._handle = _dlopen(self._name, mode)
> OSError: /usr/lib/x86_64-linux-gnu/libjemalloc.so.2: cannot allocate memory
> in static TLS block
>
>
> Any help would be welcomeThis is an issue with jemalloc's handling of the TLS model when being dlopened.. See: https://github.com/jemalloc/jemalloc/issues/1237 The recommended way to build a libjemalloc that is suitable for being dlopened is to use '--disable-initial-exec-tls' when building it. Take a look at the INSTALL.md file, and look for this option: https://github.com/jemalloc/jemalloc/blob/dev/INSTALL.md There is a way to workaround this bug by doing an LD_PRELOAD of libjemalloc when invoking python, but this will only mask the problem and we can't expect users to do/know this. The way I see it, you can try to convince jemalloc's maintainer to enable that flag. BTW, the reason 'find_library' can't find drmaa's library is because the .so is being installed in a non-standard directory. I don't know why the package was made like this, though. Thanks, -- Sergio GPG key ID: 237A 54B1 0287 28BF 00EF 31F4 D0EB 7628 65FC 5E36 Please send encrypted e-mail if possible http://sergiodj.net/
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