Dear Alexandre,
Thanks for your quick reply.
Actually, I have tried to installed already with --robot option:
eb Biopython-1.78-intel-2020a-Python-3.8.2.eb -r ./
I don't know why the santiy_check step tries to use a functionality not
listed on the
dependencies section, neither installed within
Python-3.8.2-GCCcore-9.3.0.eb.
I think the error comes from the sanity_check step. This is the error in
the log file:
== 2021-10-18 12:21:38,634 build_log.py:169 ERROR EasyBuild crashed with an
error (at
easybuild/common/software/EasyBuild/4.4.1/lib/python2.7/site-packages/easybuild/base/exceptions.py:124
in __init__): `pip check` failed:
yaff 1.4.2 requires h5py, which is not installed.
(at
*easybuild/common/software/EasyBuild/4.4.1/lib/python2.7/site-packages/easybuild/easyblocks/generic/pythonpackage.py:886
in sanity_check_step*)
You suggested to install h5py by hand as an extension?
I.e including in the easyconfig file for Biopython something like:
*exts_list = [ *
* ('h5py', '3.0.0', {*
* 'checksums':
['7d3803be1b530c68c2955faba726dc0f591079b68941a0c0269b5384a42ab519'],*
*]*
Thank you !
quim
Missatge de Strube, Alexandre <[email protected]> del dia dl., 18
d’oct. 2021 a les 13:46:
> Hola Joaquim,
>
> dependencies are dealt with --robot setting - which should bring the right
> ones.
>
> In any case, you can always install h5py beforehand yourself.
>
> On 18. Oct 2021, at 12:26, Joaquim Jornet Somoza <
> [email protected]> wrote:
>
> Dear easybuilders,
>
> I am trying to install Biopython-1.78-intel-2020a-Python-3.8.2.eb, but
> after the installation and
> postprocessing, the sanity check step fails.
>
> I have found this error that I don't know how to avoid:
>
> == 2021-10-18 12:21:38,634 build_log.py:169 ERROR EasyBuild crashed with
> an error (at
> easybuild/common/software/EasyBuild/4.4.1/lib/python2.7/site-packages/easybuild/base/exceptions.py:124
> in __init__): `pip check` failed:
> yaff 1.4.2 requires h5py, which is not installed.
>
> Could anyone help me?
>
>
> Best regards
> quim
>
> --
>
> ----------------------------------------------------------------------------------------------------------------------------------------
> *Dr. Joaquim Jornet Somoza*
> *Técnico Superior de Cálculo Científico *
> Servicios Generales a la Investigación (*SGIker*)
> Universidad del País Vasco (*UPV/EHU*)
> email: [email protected]
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> Av. Tolosa 72, 4a planta
> 20018 Donostia-San Sebastián,
> Gipuzkoa, Spain
>
> *External Collaborator.*
> Nano-Bio Spectroscopy group
> Departamento de Física de Materiales
> Universidad del País Vasco (UPV/EHU)
> Donostia-San Sebastián, Gipuzkoa, Spain
>
> The Max Planck Institute for the Structure and Dynamics of Matter (MPSD)
> Bldg. 99 (CFEL)
> Luruper Chaussee 149
> 22761 Hamburg, Germany
>
>
>
--
----------------------------------------------------------------------------------------------------------------------------------------
*Dr. Joaquim Jornet Somoza*
*Técnico Superior de Cálculo Científico *
Servicios Generales a la Investigación (*SGIker*)
Universidad del País Vasco (*UPV/EHU*)
email: [email protected]
Edificio Joxe Maria Korta (Campus Gipuzkoa)
Av. Tolosa 72, 4a planta
20018 Donostia-San Sebastián,
Gipuzkoa, Spain
w: http://www.ehu.es/sgi/
tw: @izosgi
fb: izosgi
