Python 3 installation

[svvenkatakrishnan]

I am trying to get lprec working with python 3.6.

However, when I try to install it I get the following error:

python setup.py install

gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -m64 -fPIC -m64 -fPIC -fPIC -I/anaconda3/lib/python3.6/site-packages/numpy/core/include -I/usr/local/cuda/include -Isrc -I/anaconda3/include/python3.6m -c src/lpRgpu_wrap.cpp -o build/temp.linux-x86_64-3.6/src/lpRgpu_wrap.o
Traceback (most recent call last):
File "setup.py", line 143, in
zip_safe=False)
File "/anaconda3/lib/python3.6/site-packages/setuptools/init.py", line 143, in setup
return distutils.core.setup(**attrs)
File "/anaconda3/lib/python3.6/distutils/core.py", line 148, in setup
dist.run_commands()
File "/anaconda3/lib/python3.6/distutils/dist.py", line 955, in run_commands
self.run_command(cmd)
File "/anaconda3/lib/python3.6/distutils/dist.py", line 974, in run_command
cmd_obj.run()
File "/anaconda3/lib/python3.6/site-packages/setuptools/command/install.py", line 67, in run
self.do_egg_install()
File "/anaconda3/lib/python3.6/site-packages/setuptools/command/install.py", line 109, in do_egg_install
self.run_command('bdist_egg')
File "/anaconda3/lib/python3.6/distutils/cmd.py", line 313, in run_command
self.distribution.run_command(command)
File "/anaconda3/lib/python3.6/distutils/dist.py", line 974, in run_command
cmd_obj.run()
File "/anaconda3/lib/python3.6/site-packages/setuptools/command/bdist_egg.py", line 172, in run
cmd = self.call_command('install_lib', warn_dir=0)
File "/anaconda3/lib/python3.6/site-packages/setuptools/command/bdist_egg.py", line 158, in call_command
self.run_command(cmdname)
File "/anaconda3/lib/python3.6/distutils/cmd.py", line 313, in run_command
self.distribution.run_command(command)
File "/anaconda3/lib/python3.6/distutils/dist.py", line 974, in run_command
cmd_obj.run()
File "/anaconda3/lib/python3.6/site-packages/setuptools/command/install_lib.py", line 11, in run
self.build()
File "/anaconda3/lib/python3.6/distutils/command/install_lib.py", line 107, in build
self.run_command('build_ext')
File "/anaconda3/lib/python3.6/distutils/cmd.py", line 313, in run_command
self.distribution.run_command(command)
File "/anaconda3/lib/python3.6/distutils/dist.py", line 974, in run_command
cmd_obj.run()
File "/anaconda3/lib/python3.6/distutils/command/build_ext.py", line 339, in run
self.build_extensions()
File "setup.py", line 126, in build_extensions
build_ext.build_extensions(self)
File "/anaconda3/lib/python3.6/distutils/command/build_ext.py", line 448, in build_extensions
self._build_extensions_serial()
File "/anaconda3/lib/python3.6/distutils/command/build_ext.py", line 473, in _build_extensions_serial
self.build_extension(ext)
File "/anaconda3/lib/python3.6/distutils/command/build_ext.py", line 558, in build_extension
target_lang=language)
File "/anaconda3/lib/python3.6/distutils/ccompiler.py", line 717, in link_shared_object
extra_preargs, extra_postargs, build_temp, target_lang)
File "/anaconda3/lib/python3.6/distutils/unixccompiler.py", line 159, in link
libraries)
File "/anaconda3/lib/python3.6/distutils/ccompiler.py", line 1089, in gen_lib_options
lib_opts.append(compiler.library_dir_option(dir))
File "/anaconda3/lib/python3.6/distutils/unixccompiler.py", line 207, in library_dir_option
return "-L" + dir
TypeError: must be str, not bytes

[nikitinvv]

@venkat-purdue, thanks for reporting this error of compatibility python 2 and python 3 string formats. The error is fixed now.

[svvenkatakrishnan]

Thank you for the quick response! @math-vrn . It does compile now. However, the code does not seem to work with the current tomopy. I will open an issue in the tomopy repo.

[ZeliangSu]

@venkat-purdue I tried to use the wrapper.py in @math-vrn 's tomopy repo. It worked.

[svvenkatakrishnan]

Lprec seems to run okay when I run the ./tests/run_test.py code. However, when I try running the example based on my latest tomopy version 1.2.1 (compiled from the main master branch), https://tomopy.readthedocs.io/en/stable/ipynb/lprec.html the recon is an array with all values set to 1e-6.

@ZeliangSu @math-vrn - should I open a new issue in the tomopy repo ?