Moltes gràcies Alexandre, I will check it !
Best regards quim Missatge de Strube, Alexandre <[email protected]> del dia dl., 25 d’oct. 2021 a les 17:51: > Bona tarda! > > Usually you have to cleanup everything related to pip on your local > install, and depending on the system, on the global install. That messes up > things > > Also, give it a try with “pip check” > > > On 20. Oct 2021, at 15:02, Joaquim Jornet Somoza < > [email protected]> wrote: > > Hi Alexandre, > > Thank you for your reply. > I tried deleting the ~/.local and ~/.cache pip related staff...but the > problem still appears. > > Should I delete anything else? > > Thank you again ! > quim > > Missatge de Strube, Alexandre <[email protected]> del dia dl., 18 > d’oct. 2021 a les 23:20: > >> Hi, >> >> this might happen if your pip installation is somehow messed up. I had >> this happening recently, and turns out it was pip itself, so I deleted all >> my >> pip stuff, .local , .cache and so on >> >> On 18. Oct 2021, at 14:24, Joaquim Jornet Somoza <[email protected]> >> wrote: >> >> 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] >>> Edificio Joxe Maria Korta (Campus Gipuzkoa) >>> 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 >> >> >> > > -- > > ---------------------------------------------------------------------------------------------------------------------------------------- > *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 > > *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
