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Public repository for the Monte Python Code
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Monte Python cannot use clik wrapper #51

Closed DinorahBarbosa closed 1 year ago

DinorahBarbosa commented 5 years ago

Hi, I've been trying to reproduce the data of an article using Planck's 2013 likelihood. I followed the steps for installing and usage but I keep getting the following error:

python montepython/MontePython.py run -p input/planck+pantheon2.param -o chains/deltaw0 -N 1000 Running Monte Python v3.0.1

with CLASS v2.7.1

Testing likelihoods for: -> Planck_actspt, Planck_highl, Planck_lowl, Planck_lensing, Pantheon, bao

Cannot use clik wrapper (cause = 'No module named lkl') Cannot use clik_lensing wrapper (cause = 'No module named lkl_lensing') Traceback (most recent call last): File "montepython/MontePython.py", line 40, in sys.exit(run()) File "/home/dinorah/montepython_public/montepython/run.py", line 31, in run custom_command) File "/home/dinorah/montepython_public/montepython/run.py", line 188, in safe_initialisation cosmo, data, command_line, success = initialise(custom_command) File "/home/dinorah/montepython_public/montepython/initialise.py", line 66, in initialise data = Data(command_line, path) File "/home/dinorah/montepython_public/montepython/data.py", line 341, in init self.initialise_likelihoods(self.experiments) File "/home/dinorah/montepython_public/montepython/data.py", line 470, in initialise_likelihoods elem, elem, folder, elem) File "", line 1, in File "/home/dinorah/montepython_public/montepython/likelihood_class.py", line 886, in init except clik.lkl.CError: AttributeError: 'module' object has no attribute 'lkl'

I don't understand what I did wrong, I have configured all the files correctly...

brinckmann commented 5 years ago

Hi,

It looks like MontePython cannot find your Planck installation. Are you sure you have correctly installed and sourced the Planck likelihoods? Make sure the path to your Planck likelihoods is correctly set in default.conf and are correctly sourced: e.g. in default.conf I have: path['clik'] = '/home/usr/software/plc-2.0/' and in my ~/.zshrc file (I use zsh in this case) I have: source /home/usr/software/plc-2.0/bin/clik_profile.zsh

Also I see you are using v3.0.1 and would recommend updating to MontePython v3.1 (but that has no bearing on this issue).

Best, Thejs

gansuhmgl commented 4 years ago

Hi?

I have a similar issue as is asked above. Any solution? My default.conf file looks: ` root = '/Users/kosmos'

path['cosmo'] = root+'/Documents/class_public/'

path['cosmo'] = root+'/hi_class_public/'

path['clik'] = root+'/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/' path['JLA']. = root+'/montepython_public_3.2dev_Python3/data/JLA/' path['Pantheon'] = root+'/montepython_public_3.2dev_Python3/data/Pantheon/' ` and I have no problem using JLA (have not checked the Pantheon data yet) Also, in my ~/.bash_rc file, I have

source /Users/kosmos/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/bin/clik_profile.sh

but I still get the following message when running MP:

`kosmos$ mpirun -np 4 python montepython/MontePython.py run -p input/example.param -o my_example/ -N 1000 Running Monte Python v3.2.0

with CLASS v2.9.3 /!\ Detecting empty folder, logging the parameter file

Testing likelihoods for: -> fake_planck_bluebook, Planck_lensing

Initialised likelihood_mock_cmb with following options: unlensed_clTTTEEE is False Bmodes is False delensing is False LensingExtraction is False neglect_TD is True ExcludeTTTEEE is False OnlyTT is False

Traceback (most recent call last): File "/Users/kosmos/montepython_public_3.2dev_Python3/montepython/likelihood_class.py", line 885, in init self.clik = clik.clik_lensing(self.path_clik) AttributeError: module 'clik' has no attribute 'clik_lensing'

During handling of the above exception, another exception occurred:

Traceback (most recent call last): File "montepython/MontePython.py", line 38, in sys.exit(mpi_run()) File "/Users/kosmos/montepython_public_3.2dev_Python3/montepython/run.py", line 101, in mpi_run custom_command, comm, nprocs) File "/Users/kosmos/montepython_public_3.2dev_Python3/montepython/run.py", line 191, in safe_initialisation cosmo, data, command_line, success = initialise(custom_command) File "/Users/kosmos/montepython_public_3.2dev_Python3/montepython/initialise.py", line 66, in initialise data = Data(command_line, path) File "/Users/kosmos/montepython_public_3.2dev_Python3/montepython/data.py", line 363, in init self.initialise_likelihoods(self.experiments) File "/Users/kosmos/montepython_public_3.2dev_Python3/montepython/data.py", line 492, in initialise_likelihoods elem, elem, folder, elem)) File "", line 1, in File "/Users/kosmos/montepython_public_3.2dev_Python3/montepython/likelihood_class.py", line 896, in init except clik.lkl.CError: AttributeError: module 'clik' has no attribute 'lkl' `

Thank you in advance for your help.

Cheers! Gansukh.T

brinckmann commented 4 years ago

Something is incorrect with the Planck installation or the paths you give MontePython. Check that the paths are correct and point to the correct files. Also check that the Planck likelihoods were compiled and sourced correctly and can be called.

Best, Thejs

gansuhmgl commented 4 years ago

Thank you, Thejs, for your kind reply.

I have checked the path I have given MontePython, which looks to be correct to me. Is there any other way (rather than looking into default.conf and confirming it with the actual path) for checking whether paths to Planck that I give to MontePython are being correctly called?

Now, it lets me think whether, or not, my Planck installation is correct. Since I am not sure Planck likelihoods are compiled and sourced correctly, and if you do not mind having a look, I am showing my steps on how I installed the Planck in the following. 

$ ./waf configure --cfitsio_prefix=/Users/R1007/Documents/cfitsio-3.48/

Setting top to                           : /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01 
Setting out to                           : /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/build 

Checking for program 'gcc, cc'           : /usr/local/bin/gcc-7 
Checking for program 'ar'                : /usr/bin/ar 
Check gcc version                        : 7.5.0 
Compile a test code with gcc             : 
yes 
Setting architecture flag to             : ['-arch', 'x86_64'] 
Checking for program 'ifort'             : /usr/local/bin/gfortran-7 
ifort not found, defaulting to gfortran (cause: 'cannot determine ifort version.
(complete log in /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/build/config.log)')
Checking for program 'gfortran, g77'     : /usr/local/bin/gfortran-7 
Checking for program 'ar'                : /usr/bin/ar 
Check gfortran version                   : not found, let's hope for the best...
Compile a test code with gfortran        : yes 
retrieve gfortran link line              : ok 
fortran link line                        : -L/usr/local/Cellar/gcc@7/7.5.0_2/lib/gcc/7 -lgfortran -lgomp 
Setting install root to                  : /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01 
Setting install bin directory to         : /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/bin 
Setting install lib directory to         : /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/lib 
Setting install include directory to     : /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/include 
Checking for program 'python'            : /opt/anaconda3/bin/python 
Checking for python version              : 3.7.6 
python-config                            : /opt/anaconda3/bin/python3.7-config 
Asking python-config for pyembed '--cflags --libs --ldflags --embed' flags : not found 
Asking python-config for pyembed '--cflags --libs --ldflags' flags         : yes 
Testing pyembed configuration                                              : yes 
Checking for library dl                                                    : yes 
checking for RTLD_DEFAULT in dl                                            : yes 
compile with debug option                                                  : OFF 
Checking for program 'pmc-config'                                          : not found 
Checking for library pmc                                                   : not found 
Check apple lapack                                                         : ok 
Checking for library ['BLAS', 'LAPACK']                                    : yes 
checking for function 'dposv'                                              : yes 
checking for function 'dtrsv'                                              : yes 
checking for function 'dpotrf'                                             : yes 
checking for function 'dpotrs'                                             : yes 
checking for function 'dpotri'                                             : yes 
checking for function 'dtrtri'                                             : yes 
checking for function 'dtrmm'                                              : yes 
checking for function 'dtrmv'                                              : yes 
checking for function 'dgeqrf'                                             : yes 
checking for function 'dormqr'                                             : yes 
checking for function 'dsyev'                                              : yes 
checking for function 'dgesvd'                                             : yes 
checking for function 'dsymv'                                              : yes 
checking for function 'dgemv'                                              : yes 
checking for function 'dgemm'                                              : yes 
checking for function 'dsyrk'                                              : yes 
checking for function 'dsyr2k'                                             : yes 
checking for function 'daxpy'                                              : yes 
checking for function 'dtrsm'                                              : yes 
checking for function 'dsymm'                                              : yes 
checking for function 'dsyr'                                               : yes 
checking for function 'ddot'                                               : yes 
checking for function 'dsyevd'                                             : yes 
checking for function 'dlamch'                                             : yes 
checking for function 'dsyevr'                                             : yes 
Checking for library ['cfitsio']                                           : yes 
checking for function 'fits_init_cfitsio'                                  : yes 
Python version allows for automatic install                                : yes (3.7.6) 
Checking for program 'python'                                              : /opt/anaconda3/bin/python 
Checking python module 'numpy'                                             : ok 
Checking python module 'astropy'                                           : ok 
Checking for program 'python'                                              : /opt/anaconda3/bin/python 
Checking python module 'cython'                                            : ok 
Checking python module 'cython'                                            : ok 
Checking cython version (>0.28)                                            : 0.29.15 
Checking for program 'cython'                                              : /opt/anaconda3/bin/cython 
Add plugin : 'rel2015'                                                     : ok 

*----------------------------------------------------*
|                                                    |
|   Configure step ok.                               |
|                                                    |
|   run './waf install' now !                        |
|                                                    |
*----------------------------------------------------*

'configure' finished successfully (4.396s)

as you can see, everything looks to be okay except "ifort is not found" and " Check gfortran version: not found, let's hope for the best..."

Then, considering it succeeded, I did the following step: 

$ ./waf install
Waf: Entering directory `/Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/build'
add plik/component_plugin/rel2015/fg2015.c
add plik/component_plugin/rel2015/corrnoise.c
add plik/component_plugin/rel2015/leakage.c
[  1/141] Compiling src/python/clik/lkl.pyx
[  2/141] Compiling src/python/clik/lkl_lensing.pyx
[  3/141] Compiling src/python/clik/parametric.pyx
[  4/141] Compiling src/plik/component_plugin/rel2015/rel2015.pyx
[  5/141] Processing src/lowlike/Planck_options.F90
[  6/141] Processing src/actspt/Highell_options.F90
[  7/141] Processing src/actspt/Highell_subroutines.F90
[  8/141] Processing src/gibbs/comm_gauss_br_mod.f90
[  9/141] Processing src/gibbs/comm_gauss_br_mod_v3.f90
[ 10/141] Processing src/gibbs/comm_lowl_mod_dist.f90
[ 11/141] Processing src/gibbs/comm_br_mod.f90
[ 12/141] Processing src/cmbonly/plik_cmbonly.f90
[ 13/141] Processing src/camspec/CAMspec.f90
[ 14/141] Processing src/camspec/temp_like.f90
[ 15/141] Processing src/camspec/temp_like_v3.f90
[ 16/141] Processing src/bflike/healpix_types.f90
[ 17/141] Compiling src/lowlike/read_archive_map.f90
[ 18/141] Processing src/lowlike/br_mod_dist.f90
[ 19/141] Processing src/lowlike/Planck_teeebb_pixlike.F90
[ 20/141] Processing src/actspt/Foregrounds_loading.F90
/opt/anaconda3/lib/python3.7/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/src/plik/component_plugin/rel2015/rel2015.pyx
  tree = Parsing.p_module(s, pxd, full_module_name)

[ 21/141] Processing src/gibbs/clik_gibbs.f90
[ 22/141] Processing src/bflike/long_intrinsic_smw.f90
[ 23/141] Processing src/cmbonly/clik_cmbonly.f90
[ 24/141] Compiling src/lowlike/read_fits.f90
[ 25/141] Processing src/actspt/ACT_south_likelihood.F90
[ 26/141] Processing src/actspt/ACT_equa_likelihood.F90
[ 27/141] Processing src/actspt/SPT_keisler_likelihood.F90
[ 28/141] Processing src/actspt/SPT_reichardt_likelihood.F90
[ 29/141] Processing src/bflike/fitstools_smw.f90
[ 30/141] Processing src/lowlike/Planck_likelihood.F90
[ 31/141] Processing src/camspec/clik_CAMspec.F90
[ 32/141] Processing src/clik.F90
[ 33/141] Compiling build/src/python/clik/__pycache__/miniparse.cpython-37.pyo
[ 34/141] Compiling build/src/python/clik/__pycache__/__init__.cpython-37.pyc
[ 35/141] Processing src/actspt/Highell_likelihood.F90
[ 36/141] Processing src/lowlike/clik_lowlike.f90
[ 37/141] Compiling build/src/python/clik/__pycache__/smicahlp.cpython-37.pyc
[ 38/141] Compiling build/src/python/clik/__pycache__/cldf.cpython-37.pyc
[ 39/141] Processing src/plik/clik_plik.f90
[ 40/141] Compiling src/clik_example_f90.f90
[ 41/141] Processing src/actspt/clik_actspt.f90
[ 42/141] Compiling build/src/python/clik/__pycache__/smicahlp.cpython-37.pyo
[ 43/141] Compiling build/src/python/clik/__pycache__/hpy.cpython-37.pyc
[ 44/141] Compiling build/src/python/clik/__pycache__/hpy.cpython-37.pyo
/opt/anaconda3/lib/python3.7/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/src/python/clik/lkl_lensing.pyx
  tree = Parsing.p_module(s, pxd, full_module_name)
warning: /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/src/python/clik/lkl_lensing.pyx:51:13: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
warning: /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/src/python/clik/lkl_lensing.pyx:51:19: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
warning: /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/src/python/clik/lkl_lensing.pyx:151:13: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
warning: /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/src/python/clik/lkl_lensing.pyx:151:19: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.

[ 45/141] Processing src/bflike/bflike_QUonly.f90
/opt/anaconda3/lib/python3.7/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/src/python/clik/lkl.pyx
  tree = Parsing.p_module(s, pxd, full_module_name)
warning: /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/src/python/clik/lkl.pyx:49:13: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
warning: /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/src/python/clik/lkl.pyx:49:19: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
warning: /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/src/python/clik/lkl.pyx:207:13: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
warning: /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/src/python/clik/lkl.pyx:207:19: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.

[ 46/141] Processing src/bflike/bflike.f90
[ 47/141] Processing src/bflike/bflike_smw.f90
[ 48/141] Compiling build/src/python/clik/__pycache__/__init__.cpython-37.pyo
[ 49/141] Compiling build/src/python/clik/__pycache__/cldf.cpython-37.pyo
[ 50/141] Compiling build/src/python/clik/__pycache__/parobject.cpython-37.pyc
[ 51/141] Compiling build/src/python/clik/__pycache__/parobject.cpython-37.pyo
[ 52/141] Compiling build/src/python/clik/__pycache__/miniparse.cpython-37.pyc
[ 53/141] Compiling src/python/tools/clik_change_lrange_bychannel_pol.py
[ 54/141] Compiling src/python/tools/clik_change_lrange.py
[ 55/141] Compiling src/python/tools/clik_get_selfcheck.py
[ 56/141] Compiling src/python/tools/prepare_wmap.py
[ 57/141] Compiling src/python/tools/clik_example_py.py
[ 58/141] Compiling src/python/tools/clik_print.py
[ 59/141] Compiling src/python/tools/clik_explore_1d.py
- install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/include/clik_lensing.h (from src/clik_lensing.h)
- install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/include/clik.h (from src/clik.h)
- install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/include/errorlist.h (from src/minipmc/errorlist.h)
+ install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/lib/python/site-packages/clik/__pycache__/hpy.cpython-37.pyo (from build/src/python/clik/__pycache__/hpy.cpython-37.pyo)
+ install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/lib/python/site-packages/clik/__pycache__/__init__.cpython-37.pyo (from build/src/python/clik/__pycache__/__init__.cpython-37.pyo)
- install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/lib/python/site-packages/clik/hpy.py (from src/python/clik/hpy.py)
- install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/lib/python/site-packages/clik/smicahlp.py (from src/python/clik/smicahlp.py)
+ install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/lib/python/site-packages/clik/__pycache__/cldf.cpython-37.pyo (from build/src/python/clik/__pycache__/cldf.cpython-37.pyo)
+ install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/lib/python/site-packages/clik/__pycache__/hpy.cpython-37.pyc (from build/src/python/clik/__pycache__/hpy.cpython-37.pyc)
- install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/lib/python/site-packages/clik/cldf.py (from src/python/clik/cldf.py)
+ install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/lib/python/site-packages/clik/__pycache__/smicahlp.cpython-37.pyo (from build/src/python/clik/__pycache__/smicahlp.cpython-37.pyo)
+ install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/lib/python/site-packages/clik/__pycache__/miniparse.cpython-37.pyo (from build/src/python/clik/__pycache__/miniparse.cpython-37.pyo)
+ install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/lib/python/site-packages/clik/__pycache__/parobject.cpython-37.pyc (from build/src/python/clik/__pycache__/parobject.cpython-37.pyc)
- install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/lib/python/site-packages/clik/miniparse.py (from src/python/clik/miniparse.py)
- install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/lib/python/site-packages/clik/parobject.py (from src/python/clik/parobject.py)
+ install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/lib/python/site-packages/clik/__pycache__/parobject.cpython-37.pyo (from build/src/python/clik/__pycache__/parobject.cpython-37.pyo)
+ install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/lib/python/site-packages/clik/__pycache__/__init__.cpython-37.pyc (from build/src/python/clik/__pycache__/__init__.cpython-37.pyc)
- install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/lib/python/site-packages/clik/__init__.py (from src/python/clik/__init__.py)
+ install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/lib/python/site-packages/clik/__pycache__/cldf.cpython-37.pyc (from build/src/python/clik/__pycache__/cldf.cpython-37.pyc)
+ install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/lib/python/site-packages/clik/__pycache__/smicahlp.cpython-37.pyc (from build/src/python/clik/__pycache__/smicahlp.cpython-37.pyc)
- install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/share/clik/rel2015/tsz_143_eps0.50.dat (from src/plik/component_plugin/rel2015/tsz_143_eps0.50.dat)
- install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/share/clik/rel2015/sz_x_cib_template.dat (from src/plik/component_plugin/rel2015/sz_x_cib_template.dat)
- install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/share/clik/rel2015/ksz_fromcamspec.dat (from src/plik/component_plugin/rel2015/ksz_fromcamspec.dat)
- install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/share/clik/rel2015/cib_1h_2h_100_353_Jsr-1_PS_2014_09.dat (from src/plik/component_plugin/rel2015/cib_1h_2h_100_353_Jsr-1_PS_2014_09.dat)
- install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/share/clik/rel2015/sky_template_v15_F100_143_217_353.dat (from src/plik/component_plugin/rel2015/sky_template_v15_F100_143_217_353.dat)
- install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/share/clik/rel2015/cnoise_F100_143_217_353_v17.dat (from src/plik/component_plugin/rel2015/cnoise_F100_143_217_353_v17.dat)
- install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/share/clik/rel2015/cleak_eh_rd12rc3_v1.dat (from src/plik/component_plugin/rel2015/cleak_eh_rd12rc3_v1.dat)
+ install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/bin/clik_change_lrange_bychannel_pol (from build/src/python/clik_change_lrange_bychannel_pol)
- install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/share/clik/rel2015/cnoise_e2e_v2.dat (from src/plik/component_plugin/rel2015/cnoise_e2e_v2.dat)
- install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/share/clik/rel2015/sbpx_tmpl_v4_hm.dat (from src/plik/component_plugin/rel2015/sbpx_tmpl_v4_hm.dat)
+ install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/bin/clik_change_lrange (from build/src/python/clik_change_lrange)
+ install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/bin/clik_get_selfcheck (from build/src/python/clik_get_selfcheck)
+ install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/bin/prepare_wmap (from build/src/python/prepare_wmap)
+ install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/bin/clik_example_py (from build/src/python/clik_example_py)
+ install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/bin/clik_print (from build/src/python/clik_print)
+ install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/bin/clik_explore_1d (from build/src/python/clik_explore_1d)
+ install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/lib/python/site-packages/clik/__pycache__/miniparse.cpython-37.pyc (from build/src/python/clik/__pycache__/miniparse.cpython-37.pyc)
/opt/anaconda3/lib/python3.7/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/src/python/clik/clik.parametric.pxd
  tree = Parsing.p_module(s, pxd, full_module_name)

[ 87/141] Compiling src/plik/component_plugin/rel2015/corrnoise.c
[ 88/141] Compiling src/lenslike/plenslike/plenslike_dat_quad.c
[ 89/141] Compiling src/minipmc/distribution.c
[ 90/141] Compiling src/plik/clik_parametric.c
[ 91/141] Compiling src/cldf/cldf.c
[ 92/141] Compiling src/lenslike/plenslike/plenslike_dat_mono.c
[ 93/141] Compiling src/cmbonly/clik_cmbonly.c
[ 94/141] Compiling src/minipmc/errorlist.c
[ 95/141] Compiling src/bflike/clik_bflike.c
[ 96/141] Compiling src/actspt/clik_actspt.c
[ 97/141] Compiling src/lenslike/plenslike/wignerd.c
[ 98/141] Compiling src/plik/clik_parametric_addon.c
[ 99/141] Compiling src/simall/clik_simall.c
[100/141] Compiling src/plik/clik_hfipack.c
[101/141] Compiling src/plik/clik_plik.c
[102/141] Compiling src/lklbs.c
[103/141] Processing src/bflike/clik_bflike.f90
[104/141] Compiling src/plik/smica.c
[105/141] Compiling src/plik/component_plugin/rel2015/fg2015.c
[106/141] Compiling src/lenslike/plenslike/plenslike_dat_full.c
[107/141] Compiling src/lenslike/plenslike/qest.c
[108/141] Compiling src/lowly_common.c
[109/141] Compiling src/lenslike/plenslike/plenslike_dat_qecl.c
[110/141] Compiling src/minipmc/io.c
[111/141] Compiling src/gibbs/clik_gibbs.c
[112/141] Compiling src/clik.c
[113/141] Compiling src/camspec/clik_CAMspec.c
[114/141] Compiling src/cldf/cfrd.c
[115/141] Compiling src/clik_lensing.c
[116/141] Compiling src/clik_helper.c
[117/141] Compiling src/lowlike/clik_lowlike.c
[118/141] Compiling src/clik_dic.c
[119/141] Compiling src/plik/component_plugin/rel2015/leakage.c
[120/141] Compiling src/clik_fortran.c
[121/141] Compiling src/clik_example_c.c
[122/141] Compiling build/src/python/clik/lkl.pyx.c
[123/141] Compiling build/src/python/clik/lkl_lensing.pyx.c
[124/141] Compiling build/src/python/clik/parametric.pyx.c
[125/141] Compiling build/src/plik/component_plugin/rel2015/rel2015.pyx.c
[126/141] Linking build/src/libclik.dylib
In file included from /opt/anaconda3/lib/python3.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1832:0,
                 from /opt/anaconda3/lib/python3.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:12,
                 from /opt/anaconda3/lib/python3.7/site-packages/numpy/core/include/numpy/arrayobject.h:4,
                 from src/python/clik/lkl.pyx.c:598:
/opt/anaconda3/lib/python3.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
 #warning "Using deprecated NumPy API, disable it with " \
  ^~~~~~~

In file included from /opt/anaconda3/lib/python3.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1832:0,
                 from /opt/anaconda3/lib/python3.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:12,
                 from /opt/anaconda3/lib/python3.7/site-packages/numpy/core/include/numpy/arrayobject.h:4,
                 from src/python/clik/lkl_lensing.pyx.c:598:
/opt/anaconda3/lib/python3.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
 #warning "Using deprecated NumPy API, disable it with " \
  ^~~~~~~

[127/141] Linking build/src/libclik_f90.dylib
[128/141] Linking build/src/clik_example_C
[129/141] Linking build/src/python/lkl.cpython-37m-darwin.so
[130/141] Linking build/src/python/lkl_lensing.cpython-37m-darwin.so
[131/141] Linking build/src/python/rel2015.cpython-37m-darwin.so
+ install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/lib/libclik.dylib (from build/src/libclik.dylib)
+ install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/bin/clik_example_C (from build/src/clik_example_C)
+ install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/lib/python/site-packages/clik/rel2015.cpython-37m-darwin.so (from build/src/python/rel2015.cpython-37m-darwin.so)
+ install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/lib/python/site-packages/clik/lkl.cpython-37m-darwin.so (from build/src/python/lkl.cpython-37m-darwin.so)
+ install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/lib/python/site-packages/clik/lkl_lensing.cpython-37m-darwin.so (from build/src/python/lkl_lensing.cpython-37m-darwin.so)
[137/141] Linking build/src/clik_example_f90
+ install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/lib/libclik_f90.dylib (from build/src/libclik_f90.dylib)
+ install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/bin/clik_example_f90 (from build/src/clik_example_f90)
In file included from /opt/anaconda3/lib/python3.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1832:0,
                 from /opt/anaconda3/lib/python3.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:12,
                 from /opt/anaconda3/lib/python3.7/site-packages/numpy/core/include/numpy/arrayobject.h:4,
                 from src/python/clik/parametric.pyx.c:600:
/opt/anaconda3/lib/python3.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
 #warning "Using deprecated NumPy API, disable it with " \
  ^~~~~~~

[140/141] Linking build/src/python/parametric.cpython-37m-darwin.so
+ install /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/lib/python/site-packages/clik/parametric.cpython-37m-darwin.so (from build/src/python/parametric.cpython-37m-darwin.so)
Waf: Leaving directory `/Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/build'

*----------------------------------------------------*
|                                                    |
|   Source clik_profile.sh (or clik_profile.csh)     |
|   to set the environment variables needed by clik  |
|                                                    |
*----------------------------------------------------*

'install' finished successfully (5.549s)

To me, except for a few warnings, it seems to be completed okay. And even source bin/clik_profile.sh went okay. I also added source /Users/R1007/Documents/montepython_public_3.2dev_Python3/planck/code/plc_3.0/plc-3.01/bin/clik_profile.sh to my ~/.bash_profile file and did source ~/.bash_profile file as well.

Is there any other way of checking whether Planck likelihoods are compiled, source, and called correctly by MontePython?

Thank you once again for your kind help.

Best, Gansukh T

dchooper commented 3 years ago

Hi Gansukh,

When calling the Planck likelihood from MontePython, you need to make sure you are using the same Python versions: here you compiled plc with Python 3.7.6, but you appear to be running with MP version 3.2, which predates Python 3 support. Try updating to the latest version of MP (3.4.0) which you can then run with Python 3, or recompile the Planck likelihood with Python 2.

Best, Deanna

gansuhmgl commented 3 years ago

Dear Deanna,

Thank you for your kind response. Maybe you are right. Let me check following your comment.

Best, Gansukh. T