Problem with testing firedrake

[AlcaeusX]

Hello! I am new to firedrake, and I am facing some problems after installing it. I use a WSL Ubuntu 18.04 and work on VSC. I believe I correctly installed firedrake, following all the steps on the site. Used the python3 firedrake-install command.

This message appeared while installing PETSC: "The git repository at "/home/alkaios/firedrake/src/petsc" has too many active changes, only a subset of Git features will be enabled."

The installation was successful, but when I tried to test firedrake (cd $VIRTUAL_ENV/src/firedrake
pytest tests/regression/ -k "poisson_strong or stokes_mini or dg_advection") I got the following errors:

""
Traceback (most recent call last):
File "/usr/lib/python2.7/dist-packages/_pytest/config.py", line 365, in _importconftest
mod = conftestpath.pyimport()
File "/usr/lib/python2.7/dist-packages/py/_path/local.py", line 668, in pyimport
import(modname)
File "/usr/lib/python2.7/dist-packages/pytest/assertion/rewrite.py", line 213, in load_module
py.builtin.exec(co, mod.dict)
File "/usr/lib/python2.7/dist-packages/py/builtin.py", line 221, in exec
exec2(obj, globals, locals)
File "", line 7, in exec2
File "/home/alkaios/firedrake/src/firedrake/tests/conftest.py", line 6, in
from pyadjoint.tape import get_working_tape
ImportError: No module named pyadjoint.tape
ERROR: could not load /home/alkaios/firedrake/src/firedrake/tests/conftest.py ""

I also tried to "import firedrake" in python and python3 in the venv, and it didn't raise any errors, but anything I tried after that was marked as "not defined"
( >>> import firedrake

fe = FiniteElement("RTCE", quadrilateral, 2, variant="equispaced")
Traceback (most recent call last):
File "", line 1, in
NameError: name 'FiniteElement' is not defined)

Any help would be greatly appreciated!!

[dham]

The traceback indicates that you are using pytest from a system Python 2.7 install rather that one installed in the venv. Make sure the venv is active and then use python -m pytest rather than just pytest. This is more likely to find the correct Pytest.

The last issue is simpy how Python import works. If you want to use Firedrake names on their own (i.e. FiniteElement and not firedrake.FiniteElement then you need from firedrake import *.

[dham]

That's configure. I'm afraid we need configure.log

[AlcaeusX]

unfortunately when I try to zip it it appears:
! \wsl.localhost\Ubuntu\home\firedrake\firedrake\src\petsc\configure.zip: Cannot open \wsl.localhost\Ubuntu\home\firedrake\firedrake\src\petsc\configure.log
The system cannot resolve the file name.

[AlcaeusX]

I erased and reinstalled everything. Same errors, but now the configure.log is not corrupted, so I am attaching it. Hope it helps!!
configure.log

[connorjward]

You are having trouble installing NetCDF so my guess is you're hitting this issue. We've updated firedrake-install so fingers crossed things will work if you fetch an updated install script.

[AlcaeusX]

I clean installed again, and it is working fine now! Thank you for updating the script!