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Replace run_cmd and run_cmd_qa with run_shell_cmd #3089

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branfosj opened this issue Jan 26, 2024 · 1 comment
Closed

Replace run_cmd and run_cmd_qa with run_shell_cmd #3089

branfosj opened this issue Jan 26, 2024 · 1 comment
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EasyBuild-5.0 EasyBuild 5.0
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5.0

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@branfosj
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branfosj commented Jan 26, 2024 •
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The todo list for replacing run_cmd and run_cmd_qa with run_shell_cmd for EB5.

Please make sure this issue is updated with links to the PRs for the changes. PRs can contain multiple easyblock updates, but please consider the required testing so that there is not too many tests to be done for any one PR. Also, remember that some easyblocks are also used via easyblock = 'EB_name' or inherited.

run_cmd only

run_cmd_qa

Nothing to do

  • a nothing to do: aocc.py, aomp.py, allinea.py, advisor.py, armadillo.py
  • b nothing to do: bwa.py, bwise.py, bowtie2.py, bioconductor.py, berkeleygw.py, blat.py, blender.py, bowtie.py, bamtools.py
  • c nothing to do: cblas.py, cgal.py, clang_aomp.py, code_server.py, cudnn.py, chapel.py, cufflinks.py, crispr_dav.py, cmake.py
  • d nothing to do: db.py
  • e nothing to do: extrae.py, eigen.py, epd.py, elsi.py, easybuildmeta.py, egglib.py, elpa.py
  • f nothing to do: flex.py, ferret.py, fftw.py, freesurfer.py, foldx.py, fftwmpi.py, freetype.py
  • g nothing to do: g2lib.py, gctf.py, ghc.py, g2clib.py
  • h nothing to do: hypre.py, hdf5.py, hpcc.py
  • i nothing to do: imkl_fftw.py, ifort.py, inspector.py, ipp.py, iccifort.py
  • j nothing to do: jaxlib.py
  • k no easyblocks
  • l nothing to do: lua.py, libxml2.py, llvm.py, libdrm.py
  • m nothing to do: mvapich2.py, mothur.py, motioncor2.py, metagenome_atlas.py, mutil.py, mamba.py, mesa.py, metavelvet.py, mpich.py, mumps.py, mtl4.py
  • n nothing to do: numexpr.py, nose.py, nccl.py, netcdf_fortran.py, netcdf.py, netcdf4_python.py, ncurses.py
  • o nothing to do: opencv.py, orca.py, octave.py, openbabel.py, openmpi.py
  • p nothing to do: psmpi.py, pytorch.py, pyzmq.py, primer3.py, pasha.py, paraver.py, pbdmpi.py, pdt.py, pyquante.py, picard.py, pbdslap.py
  • q nothing to do: quantumespresso.py
  • r nothing to do: reticulate.py, r.py, ruby.py, rserve.py, rmpi.py
  • s nothing to do: superlu.py, suitesparse.py, sympy.py, scalasca1.py, shrimp.py, swig.py, scipy.py, score_p.py, samtools.py, soapdenovo.py
  • t nothing to do: torchvision.py, tkinter.py, tornado.py, tau.py, trilinos.py
  • u nothing to do: ufc.py
  • v nothing to do: velvet.py, vtune.py
  • x nothing to do: xcrysden.py, xml.py, xalt.py
  • y no easyblocks
  • z no easyblocks
@branfosj branfosj added the EasyBuild-5.0 EasyBuild 5.0 label Jan 26, 2024
@branfosj branfosj added this to the 5.0 milestone Jan 26, 2024
@branfosj branfosj mentioned this issue Apr 19, 2024
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@branfosj branfosj mentioned this issue May 30, 2024
Merged
@boegel boegel moved this to run_shell_cmd in EasyBuild v5.0 Aug 28, 2024
@boegel
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boegel commented Aug 28, 2024

Last hurdle here is the ABAQUS easyblock, which is being dealt with in:

(and adding a CI check to make sure that no easyblocks rely on run_cmd or run_cmd_qa...)

@boegel boegel removed this from EasyBuild v5.0 Aug 29, 2024
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