Icclim does not import
Closed this issue · 21 comments
Hi have installed icclim and when I conda list from terminal I see it, however, when I conda it does not appear in my envrionment when I check from pycharm and doesnt import as well. I would be glad if I can be assisted with this installation as I need it for some computations. Thanks
Hi
thanks very much it is now importing from both pycharm and Jupyter.
Regards...
Hi christian,
So after now successfully importing icclim, I decided to try it to but after defining all the variables and running the codes using the example from the documention, I get this error,
import icclim
icclim.indice(user_indice=my_indice_params, in_files=file_pr, var_name='pr', slice_mode='year', base_period_time_range=bp, out_unit='days', out_file=out_f, callback=callback.defaultCallback2)
Traceback (most recent call last):
File "/Users/mada0007/anaconda3/envs/RAWORK/lib/python3.6/site-packages/IPython/core/interactiveshell.py", line 3267, in run_code
exec(code_obj, self.user_global_ns, self.user_ns)
File "", line 1, in
icclim.indice(user_indice=my_indice_params, in_files=file_pr, var_name='pr', slice_mode='year', base_period_time_range=bp, out_unit='days', out_file=out_f, callback=callback.defaultCallback2)
AttributeError: module 'icclim' has no attribute 'indice'
Can you please explain to me what I might be missing?
Thanks in advance,
Staph
Hi Mada,
You might want to import icclim that way:
from icclim import icclim
Let me know if it works
Xavier
Hi Xavier it still does not work.
Could there be any other suggestion
Do you still have the same error message ?
I will try to reproduce your error with a Jupyter Notebook tomorrow - I'll let you know if I find the bug.
Sure thanks I will be looking forward to it.
Regards,
Mustapha
Hi Mustapha,
I've been "successful" to get the same bug than you. I've solved by doing the following:
I think you might have icclim installed on your system but not on your anaconda envs, this was the case for me after creating the new environment.
I reinstalled all the packages required to run icclim in a terminal inside the conda virtual was "activate". The module are:
numpy
Cython
netcdftime
cftime
and netcdf4 from https://github.com/Unidata/netcdf4-python, just follow the instruction at the bottom of README
Then install icclim in the active anaconda environment. Once done you should be able to import icclim as follow:
from icclim import icclim
Note there was one bug using anaconda, I solve it and pulled a request. Once Christian accepts the new version, clone and install it. Let me know how it goes, here is my log after doing this:
Jupyter QtConsole 4.3.1
Python 3.6.8 |Anaconda, Inc.| (default, Dec 29 2018, 19:04:46)
Type 'copyright', 'credits' or 'license' for more information
IPython 7.2.0 -- An enhanced Interactive Python. Type '?' for help.
from icclim import icclim
user_indice = {'indice_name': 'tas_mean',
'calc_operation': 'mean',
'var_type': 't',
}
save_path = '/Users/xavier/Projets/data/test/results/'
slice_mode = 'year'
path_in_file = '/Users/xavier/Projets/data/tmpfic_CNRM_LR.nc'
out_file = save_path+"tmpfic_CNRM_LR_temporal_mean.nc"
from icclim.util import callback
icclim.indice(user_indice=user_indice,
in_files=path_in_file, var_name='tasmax', ignore_Feb29th=False,
out_file=out_file, callback=callback.defaultCallback2)
2019-01-29 06:10:47,463 ********************************************************************************************
2019-01-29 06:10:47,464 * *
2019-01-29 06:10:47,467 * icclim V4.2.11 *
2019-01-29 06:10:47,468 * *
2019-01-29 06:10:47,468 * *
2019-01-29 06:10:47,469 * Tue Jan 29 06:10:47 2019 GMT *
2019-01-29 06:10:47,470 * *
2019-01-29 06:10:47,471 * BEGIN EXECUTION *
2019-01-29 06:10:47,471 * *
2019-01-29 06:10:47,472 ********************************************************************************************
2019-01-29 06:10:47,821 Loading data...
2019-01-29 06:11:32,675 [Processing: ] 1.54%
2019-01-29 06:11:32,761 [Processing: ] 3.08%
2019-01-29 06:11:32,886 [Processing: ] 4.62%
2019-01-29 06:11:32,963 [Processing: ] 6.15%
2019-01-29 06:11:33,046 [Processing: ] 7.69%
2019-01-29 06:11:33,136 [Processing: ] 9.23%
2019-01-29 06:11:33,263 [Processing: ] 10.77%
2019-01-29 06:11:33,340 [Processing: ] 12.31%
2019-01-29 06:11:33,419 [Processing: ] 13.85%
2019-01-29 06:11:33,500 [Processing: ] 15.38%
2019-01-29 06:11:33,618 [Processing: ] 16.92%
2019-01-29 06:11:33,698 [Processing: ] 18.46%
2019-01-29 06:11:33,778 [Processing: ] 20.00%
2019-01-29 06:11:33,861 [Processing: ] 21.54%
2019-01-29 06:11:33,982 [Processing: ] 23.08%
2019-01-29 06:11:34,068 [Processing: ] 24.62%
2019-01-29 06:11:34,149 [Processing: ] 26.15%
2019-01-29 06:11:34,235 [Processing: ] 27.69%
2019-01-29 06:11:34,363 [Processing: ] 29.23%
2019-01-29 06:11:34,443 [Processing: ] 30.77%
2019-01-29 06:11:34,526 [Processing: ] 32.31%
2019-01-29 06:11:34,612 [Processing: ] 33.85%
2019-01-29 06:11:34,733 [Processing: ] 35.38%
2019-01-29 06:11:34,817 [Processing: ] 36.92%
2019-01-29 06:11:34,897 [Processing: ] 38.46%
2019-01-29 06:11:34,979 [Processing: ] 40.00%
2019-01-29 06:11:35,072 [Processing: ] 41.54%
2019-01-29 06:11:35,155 [Processing: ] 43.08%
2019-01-29 06:11:35,237 [Processing: ] 44.62%
2019-01-29 06:11:35,319 [Processing: ] 46.15%
2019-01-29 06:11:35,407 [Processing: ] 47.69%
2019-01-29 06:11:35,492 [Processing: ] 49.23%
2019-01-29 06:11:35,574 [Processing: ] 50.77%
2019-01-29 06:11:35,655 [Processing: ] 52.31%
2019-01-29 06:11:35,741 [Processing: ] 53.85%
2019-01-29 06:11:35,828 [Processing: ] 55.38%
2019-01-29 06:11:35,911 [Processing: ] 56.92%
2019-01-29 06:11:35,993 [Processing: ] 58.46%
2019-01-29 06:11:36,079 [Processing: ] 60.00%
2019-01-29 06:11:36,163 [Processing: ] 61.54%
2019-01-29 06:11:36,247 [Processing: ] 63.08%
2019-01-29 06:11:36,328 [Processing: ] 64.62%
2019-01-29 06:11:36,415 [Processing: ] 66.15%
2019-01-29 06:11:36,498 [Processing: ] 67.69%
2019-01-29 06:11:36,582 [Processing: ] 69.23%
2019-01-29 06:11:36,669 [Processing: ] 70.77%
2019-01-29 06:11:36,761 [Processing: ] 72.31%
2019-01-29 06:11:36,848 [Processing: ] 73.85%
2019-01-29 06:11:36,936 [Processing: ] 75.38%
2019-01-29 06:11:37,036 [Processing: ] 76.92%
2019-01-29 06:11:37,162 [Processing: ] 78.46%
2019-01-29 06:11:37,250 [Processing: ] 80.00%
2019-01-29 06:11:37,340 [Processing: ] 81.54%
2019-01-29 06:11:37,433 [Processing: ] 83.08%
2019-01-29 06:11:37,562 [Processing: ] 84.62%
2019-01-29 06:11:37,650 [Processing: ] 86.15%
2019-01-29 06:11:37,737 [Processing: ] 87.69%
2019-01-29 06:11:37,829 [Processing: ] 89.23%
2019-01-29 06:11:37,958 [Processing: ] 90.77%
2019-01-29 06:11:38,048 [Processing: ] 92.31%
2019-01-29 06:11:38,137 [Processing: ] 93.85%
2019-01-29 06:11:38,236 [Processing: ] 95.38%
2019-01-29 06:11:38,370 [Processing: ] 96.92%
2019-01-29 06:11:38,463 [Processing: ] 98.46%
2019-01-29 06:11:38,553 [Processing: ] 100.00%
2019-01-29 06:11:38,622 ********************************************************************************************
2019-01-29 06:11:38,623 * *
2019-01-29 06:11:38,626 * icclim V4.2.11 *
2019-01-29 06:11:38,627 * *
2019-01-29 06:11:38,627 * *
2019-01-29 06:11:38,628 * Tue Jan 29 06:11:38 2019 GMT *
2019-01-29 06:11:38,628 * *
2019-01-29 06:11:38,629 * END EXECUTION *
2019-01-29 06:11:38,629 * *
2019-01-29 06:11:38,630 * CP SECS = 38.450 *
2019-01-29 06:11:38,632 * *
2019-01-29 06:11:38,632 ********************************************************************************************
Out[9]: '/Users/xavier/Projets/data/test/results/tmpfic_CNRM_LR_temporal_mean.nc'
Hi I dont know where the problem is actually emanating from as I still have this error when I try from icclim import icclim
ModuleNotFoundError Traceback (most recent call last)
in
----> 1 from icclim import icclim
~/anaconda3/envs/RAWORK/lib/python3.6/site-packages/icclim-4.2.9-py3.6.egg/icclim/icclim.py in
19 from netCDF4 import Dataset, MFDataset
20
---> 21 import set_globattr
22 import set_longname_units
23 import set_longname_units_custom_indices
ModuleNotFoundError: No module named 'set_globattr'
Ok but you must re-install icclim. The package you have is icclim-4.2.9-py3.6.egg, this is a very old version of icclim. The current version is 4.2.11 not 4.2.9. Please follow the step I told you in my previous message and it should work.
Hi when I do conda list I have both 4.2.11 and 4.2.9
Name Version Build Channel
_r-mutex 1.0.0 anacondar_1
alabaster 0.7.12
appdirs 1.4.3 py36h28b3542_0
appnope 0.1.0 py36hf537a9a_0
asn1crypto 0.24.0 py36_0
autovizwidget 0.12.6 py36_0
Babel 2.6.0
backcall 0.1.0 py36_0
blas 1.0 mkl
blaze 0.11.3 py36_0
bleach 3.0.2 py36_0
blosc 1.14.4 hd9629dc_0
bokeh 0.13.0 py36_0
bwidget 1.9.11 1
bzip2 1.0.6 h1de35cc_5
ca-certificates 2018.12.5 0 anaconda
cairo 1.14.12 hc4e6be7_4
cartopy 0.17.0 py36h707127b_1000 conda-forge
cctools 895 1
cdo 1.9.5 h249571a_5 conda-forge
certifi 2018.11.29 py36_0 anaconda
cf_units 2.0.1 py36h7eb728f_2 conda-forge
cffi 1.11.5 py36h6174b99_1
cftime 1.0.2.1 py36h1d22016_0
chardet 3.0.4 py36_1
clang 4.0.1 1
clang_osx-64 4.0.1 h1ce6c1d_11
clangxx 4.0.1 1
clangxx_osx-64 4.0.1 h22b1bf0_11
click 7.0 py36_0
click-plugins 1.0.4 py36_0
cligj 0.5.0 py36_0
cloudpickle 0.6.1 py36_0
cmocean 2.0 py_0 conda-forge
colorbrewer 0.2 py_0 bioconda
colorcet 1.0.0 py36_0
compiler-rt 4.0.1 hcfea43d_1
cryptography 2.3.1 py36hdbc3d79_1000 conda-forge
cryptography-vectors 2.3.1 py36_1000 conda-forge
curl 7.61.0 h93b3f91_2 conda-forge
cycler 0.10.0 py36hfc81398_0
cython 0.29.2 py36h0a44026_0 anaconda
cytoolz 0.9.0.1 py36h1de35cc_1
dask 1.0.0 py36_0
dask-core 1.0.0 py36_0
datashape 0.5.4 py36_1
decorator 4.3.0 py36_0
deprecation 2.0.5 py_0 conda-forge
dill 0.2.8.2
distributed 1.25.0 py36_0
docrep 0.2.5 py_0 conda-forge
docrep 0.2.5
docutils 0.14
eccodes 2.8.2 ha8b302a_0 conda-forge
EMD-signal 0.2.6
entrypoints 0.2.3 py36_2
et-xmlfile 1.0.1
expat 2.2.6 h0a44026_0
fastnumbers 2.1.1
fftw 3.3.8 h470a237_1 conda-forge
flask 1.0.2 py36_1
flask-cors 3.0.7 py36_0
fontconfig 2.13.0 h5d5b041_1
freetype 2.9.1 hb4e5f40_0
freexl 1.0.5 h1de35cc_0
fribidi 1.0.5 h1de35cc_0
funcargparse 0.2.0 py_1 conda-forge
future 0.17.1 py36_0 anaconda
gdal 2.3.1 py36hb00a9d7_4 conda-forge
geos 3.6.2 h5470d99_2
geotiff 1.4.2 h2e810ce_1005 conda-forge
gettext 0.19.8.1 h15daf44_3
gfortran_osx-64 4.8.5 h22b1bf0_5
giflib 5.1.4 h1de35cc_1
glib 2.56.2 hd9629dc_0
graphite2 1.3.12 h7d4d677_1 conda-forge
gsl 2.2.1 h002c638_3
h5py 2.8.0 py36h878fce3_3
harfbuzz 1.9.0 h04dbb29_1 conda-forge
hdf4 4.2.13 hf3c6af0_1002 conda-forge/label/gcc7
hdf5 1.10.2 hfa1e0ec_1
hdijupyterutils 0.12.6 py36_0
heapdict 1.0.0 py36_2
icclim 4.2.11
icclim 4.2.9
icu 58.2 h4b95b61_1
idna 2.7 py36_0
imageio 2.4.1 py36_0
imagesize 1.1.0
intake 0.2.6 py_17 intake/label/dev
intel-openmp 2019.1 144
ipykernel 5.1.0 py36h39e3cac_0
ipython 7.2.0 py36h39e3cac_0
ipython_genutils 0.2.0 py36h241746c_0
ipywidgets 7.4.2 py36_0
itsdangerous 1.1.0 py36_0
jasper 1.900.1 hff1ad4c_5 conda-forge
jdcal 1.4
jedi 0.13.1 py36_0
jinja2 2.10 py36_0
jpeg 9c h1de35cc_1001 conda-forge/label/gcc7
json-c 0.12.1 h470a237_1 conda-forge
jsonschema 2.6.0 py36hb385e00_0
jupyter 1.0.0 py36_7
jupyter_client 5.2.3 py36_0
jupyter_console 6.0.0 py36_0
jupyter_core 4.4.0 py36_0
jupyterlab 0.35.4 py36_0 conda-forge
jupyterlab_server 0.2.0 py_0 conda-forge
kealib 1.4.9 h0bee7d0_2 conda-forge
kiwisolver 1.0.1 py36h0a44026_0
krb5 1.14.6 0 conda-forge
ld64 274.2 1
libboost 1.67.0 hebc422b_4
libcurl 7.61.1 hf30b1f0_0
libcxx 4.0.1 hcfea43d_1
libcxxabi 4.0.1 hcfea43d_1
libdap4 3.19.1 h3d3e54a_0
libedit 3.1.20170329 hb402a30_2
libffi 3.2.1 h475c297_4
libgdal 2.3.1 h1b61fa7_4 conda-forge
libgfortran 3.0.1 h93005f0_2
libiconv 1.15 hdd342a3_7
libkml 1.3.0 hbe12b63_4
libnetcdf 4.6.1 h4e6abe9_2
libpng 1.6.35 ha441bb4_0
libpq 9.5.4 0
libsodium 1.0.16 h3efe00b_0
libspatialindex 1.8.5 h2c08c6b_2
libspatialite 4.3.0a hf0dd066_1023 conda-forge
libssh2 1.8.0 hf30b1f0_1003 conda-forge
libtiff 4.0.9 hcb84e12_2
libuuid 1.0.3 h6bb4b03_2
libxml2 2.9.8 hab757c2_1
libxslt 1.1.32 hb819dd2_0
llvm 4.0.1 1
llvm-lto-tapi 4.0.1 1
llvm-openmp 4.0.1 hcfea43d_1
llvmlite 0.26.0 py36h8c7ce04_0
locket 0.2.0 py36hca03003_1
lxml 4.2.5 py36hef8c89e_0
lzo 2.10 h362108e_2
make 4.2.1 h470a237_2 conda-forge
markupsafe 1.1.0 py36h1de35cc_0
matplotlib 3.0.2 py36h54f8f79_0
meteogram-py 0.0.1
mistune 0.8.4 py36h1de35cc_0
mkl 2018.0.3 1
mkl_fft 1.0.6 py36hb8a8100_0
mkl_random 1.0.1 py36h5d10147_1
mlab 1.1.4
more-itertools 5.0.0 py36_0
msgpack-numpy 0.4.4.2 py36_0
msgpack-python 0.5.6 py36h04f5b5a_1
multipledispatch 0.6.0 py36_0
multiprocess 0.70.6.1
munch 2.3.2 py36_0
nbconvert 5.3.1 py36_0
nbformat 4.4.0 py36h827af21_0
ncurses 6.1 h0a44026_1
netcdf4 1.4.1 py36ha292673_200 conda-forge
netCDF4 1.4.2
netcdftime 1.0.0a2 py36_0 conda-forge
networkx 2.2 py36_1
notebook 5.7.2 py36_0
numba 0.41.0 py36h6440ff4_0
numexpr 2.6.8 py36h1dc9127_0
numpy 1.15.4 py36h6a91979_0
numpy-base 1.15.4 py36h8a80b8c_0
numpydoc 0.8.0
odo 0.5.1 py36hc1af34a_0
olefile 0.46 py36_0
openjpeg 2.3.0 hb95cd4c_1
openpyxl 2.5.12
openssl 1.0.2p h1de35cc_0 anaconda
ossuuid 1.6.2 hfc679d8_0 conda-forge
owslib 0.17.0 py_0 conda-forge
packaging 18.0 py36_0
pandas 0.23.4 py36h6440ff4_0
pandas-datareader 0.7.0 py36_0
pandasql 0.7.3 py36_1
pandoc 2.2.3.2 0
pandocfilters 1.4.2 py36_1
pango 1.40.14 he752989_2 conda-forge
param 1.6.1 py_0 ioam
parso 0.3.1 py36_0
partd 0.3.9 py36_0
pathos 0.2.2.1
patsy 0.5.1 py36_0 anaconda
pcre 8.42 h378b8a2_0
pexpect 4.6.0 py36_0
pickleshare 0.7.5 py36_0
pillow 5.3.0 py36hb68e598_0
pip 18.1 py36_0
pixman 0.34.0 hca0a616_3
plotly 3.4.2 py36_0 plotly
poppler 0.67.0 hf4bf5f7_1002 conda-forge
poppler-data 0.4.9 0
postgresql 10.5 py36h286b696_0 conda-forge
pox 0.2.4
ppft 1.6.4.8
prettytable 0.7.2
proj4 4.9.3 h470a237_8 conda-forge
prometheus_client 0.4.2 py36_0
prompt_toolkit 2.0.7 py36_0
psutil 5.4.8 py36h1de35cc_0
psy-maps 1.2.0 py36_1000 conda-forge
psy-simple 1.2.0 py36_1000 conda-forge
psycopg2 2.6.2 py36_0
psyplot 1.2.0 py36_1000 conda-forge
ptyprocess 0.6.0 py36_0
pycparser 2.19 py36_0
pyct 0.4.3 py_0 pyviz
pyepsg 0.4.0 py_0 conda-forge
pygments 2.2.0 py36h240cd3f_0
pykdtree 1.3.1 py36h917ab60_1002 conda-forge/label/gcc7
pyke 1.1.1 py36_1000 conda-forge
pyopenssl 18.0.0 py36_0
pyparsing 2.3.0 py36_0
pyproj 1.9.5.1 py36hfb6cdf6_1006 conda-forge
pyqt 5.6.0 py36h8210e8a_7 conda-forge
pysal 1.14.4.post1 py36_1
pyshp 1.2.12 py36_0
pysocks 1.6.8 py36_0
pytables 3.4.4 py36h13cba08_0
python 3.6.6 h4a56312_1003 conda-forge
python-awips 18.1.2 py_0 conda-forge
python-datamatrix 0.8.3 py_0 cogsci
python-dateutil 2.7.5 py36_0
python-snappy 0.5.3 py36h0a44026_0
pytz 2018.7 py36_0
pyviz_comms 0.6.0 py36_0
pywavelets 1.0.1 py36h1d22016_0
pyyaml 3.13 py36h1de35cc_0
pyzmq 17.1.2 py36h1de35cc_0
qgrid 1.1.1 py36_1
qt 5.6.2 h9e3eb04_4 conda-forge
qtconsole 4.4.2 py36_0
r-base 3.4.1 h4fe35fd_8 conda-forge
r-timedate 3043.102 r341h6115d3f_0 conda-forge
r-timeseries 3042.102 r3.4.1_0 conda-forge
readline 7.0 h1de35cc_5
requests 2.20.1 py36_0
retrying 1.3.3 py36_2
rtree 0.8.3 py36_0
ruamel_yaml 0.15.46 py36h1de35cc_0
scikit-learn 0.20.1 py36h4f467ca_0 anaconda
scilab2py 0.6.2
scipy 1.1.0 py36h28f7352_1
seaborn 0.9.0 py36_0 anaconda
send2trash 1.5.0 py36_0
setuptools 40.6.2 py36_0
shapely 1.6.4 py36h20de77a_0
sip 4.18.1 py36hfc679d8_0 conda-forge
six 1.11.0 py36_1
snappy 1.1.7 he62c110_3
snowballstemmer 1.2.1
sortedcontainers 2.1.0 py36_0
Sphinx 1.8.3
sphinxcontrib-websupport 1.1.0
sqlalchemy 1.2.14 py36h1de35cc_0
sqlite 3.25.3 ha441bb4_0
statsmodels 0.9.0 py36h1d22016_0 anaconda
streamz 0.5.0 py36_0
tblib 1.3.2 py36hda67792_0
terminado 0.8.1 py36_1
testpath 0.4.2 py36_0
tk 8.6.8 ha441bb4_0
tktable 2.10 h1de35cc_0
toolz 0.9.0 py36_0
tornado 5.1.1 py36h1de35cc_0
traitlets 4.3.2 py36h65bd3ce_0
udunits2 2.2.27.6 h3a4f0e9_1 conda-forge
urllib3 1.23 py36_0
wcwidth 0.1.7 py36h8c6ec74_0
webencodings 0.5.1 py36_1
werkzeug 0.14.1 py36_0
wheel 0.32.3 py36_0
widgetsnbextension 3.4.2 py36_0
wradlib 1.2.1 py_0 conda-forge
wrapt 1.10.11 py36h1de35cc_2
xarray 0.11.0 py36_0
xerces-c 3.2.0 h5d6a6da_2 conda-forge
xmltodict 0.11.0 py_1 conda-forge
xrft 0.1 py_1 conda-forge/label/gcc7
xscale 0.1.dev0+34.g287f044
xz 5.2.4 h1de35cc_4
yaml 0.1.7 hc338f04_2
zeromq 4.2.5 h0a44026_1
zict 0.1.3 py36_0
zlib 1.2.11 h1de35cc_3
Then when I try to uninstall icclim then I have this error
4 mada0007$ pip uninstall icclim
Uninstalling icclim-4.2.11:
Would remove:
/Users/mada0007/anaconda3/envs/RAWORK/lib/python3.6/site-packages/icclim-4.2.11-py3.6.egg
Proceed (y/n)? y
Exception:
Traceback (most recent call last):
File "/Users/mada0007/anaconda3/envs/RAWORK/lib/python3.6/shutil.py", line 544, in move
os.rename(src, real_dst)
PermissionError: [Errno 13] Permission denied: '/Users/mada0007/anaconda3/envs/RAWORK/lib/python3.6/site-packages/icclim-4.2.11-py3.6.egg' -> '/private/var/folders/zc/2qc8w1256mb4wptmk709j1y1xh_xj3/T/pip-uninstall-14g5bykm/Users/mada0007/anaconda3/envs/RAWORK/lib/python3.6/site-packages/icclim-4.2.11-py3.6.egg'
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "/Users/mada0007/anaconda3/envs/RAWORK/lib/python3.6/site-packages/pip/_internal/cli/base_command.py", line 143, in main
status = self.run(options, args)
File "/Users/mada0007/anaconda3/envs/RAWORK/lib/python3.6/site-packages/pip/_internal/commands/uninstall.py", line 75, in run
auto_confirm=options.yes, verbose=self.verbosity > 0,
File "/Users/mada0007/anaconda3/envs/RAWORK/lib/python3.6/site-packages/pip/_internal/req/req_install.py", line 683, in uninstall
uninstalled_pathset.remove(auto_confirm, verbose)
File "/Users/mada0007/anaconda3/envs/RAWORK/lib/python3.6/site-packages/pip/_internal/req/req_uninstall.py", line 224, in remove
renames(path, new_path)
File "/Users/mada0007/anaconda3/envs/RAWORK/lib/python3.6/site-packages/pip/_internal/utils/misc.py", line 280, in renames
shutil.move(old, new)
File "/Users/mada0007/anaconda3/envs/RAWORK/lib/python3.6/shutil.py", line 556, in move
rmtree(src)
File "/Users/mada0007/anaconda3/envs/RAWORK/lib/python3.6/shutil.py", line 494, in rmtree
return _rmtree_unsafe(path, onerror)
File "/Users/mada0007/anaconda3/envs/RAWORK/lib/python3.6/shutil.py", line 384, in _rmtree_unsafe
_rmtree_unsafe(fullname, onerror)
File "/Users/mada0007/anaconda3/envs/RAWORK/lib/python3.6/shutil.py", line 389, in _rmtree_unsafe
onerror(os.unlink, fullname, sys.exc_info())
File "/Users/mada0007/anaconda3/envs/RAWORK/lib/python3.6/shutil.py", line 387, in _rmtree_unsafe
os.unlink(fullname)
PermissionError: [Errno 13] Permission denied: '/Users/mada0007/anaconda3/envs/RAWORK/lib/python3.6/site-packages/icclim-4.2.11-py3.6.egg/EGG-INFO/PKG-INFO'
(RAWORK) MU00152044X:icclim-4.2.12 4 mada0007$
Any suggetions how to remove this?
Hello everyone please I am still getting this error even though I have done everything again
ModuleNotFoundError Traceback (most recent call last)
in
----> 1 from icclim import icclim
~/anaconda3/lib/python3.6/site-packages/icclim-4.2.11-py3.6.egg/icclim/icclim.py in
19 from netCDF4 import Dataset, MFDataset
20
---> 21 import set_globattr
22 import set_longname_units
23 import set_longname_units_custom_indices
ModuleNotFoundError: No module named 'set_globattr'
any help will be much appreciated thanks
and from ipython i get this error
[3]: from icclim import icclim
ModuleNotFoundError Traceback (most recent call last)
in
----> 1 from icclim import icclim
~/Downloads/icclim-4.2.13/icclim/icclim.py in
47 from . import set_longname_units
48 from . import set_longname_units_custom_indices
---> 49 from . import calc_percentiles
50 from . import time_subset
51 from . import maps
~/Downloads/icclim-4.2.13/icclim/calc_percentiles.py in
13 import pdb
14 import calendar
---> 15 from .util import calc
16 from .util import util_dt
17 import netcdftime
~/Downloads/icclim-4.2.13/icclim/util/calc.py in
11 import pdb
12 import sys
---> 13 from . import util_dt
14 from collections import OrderedDict
15
~/Downloads/icclim-4.2.13/icclim/util/util_dt.py in
5
6 #from cftime import num2date, date2num
----> 7 import netcdftime
8 import pdb
9 import os
ModuleNotFoundError: No module named 'netcdftime'
Hi Mada,
You must install netcdftime:
pip install netcdftime
Thanks only that when I use pip install netcdftime it takes forever solving environment and never installs, However I will still try and see how it goes
Thanks
maybe try
sudo pip install netcdftime
Or another suggestion:
pip install --upgrade pip
You may have to write the command just below with sudo at the beggining
Hope it will help
Hi all finally after creating new env and install necdftime first icclim is working except that is producing empty netcdf files using this code for example
icclim.indice(user_indice=my_indice_params, in_files='/Users/mada0007/Documents/RAWORK/Data_files/pr_Amon_ACCESS1-0_amip_r1i1p1_197901-200812.nc', var_name='pr',
slice_mode='year', base_period_time_range=tr,
out_unit='days', out_file=out_f,callback=callback.defaultCallback2)
2019-02-22 06:31:37,297 ********************************************************************************************
2019-02-22 06:31:37,297 * *
2019-02-22 06:31:37,298 * icclim V4.2.13 *
2019-02-22 06:31:37,298 * *
2019-02-22 06:31:37,298 * *
2019-02-22 06:31:37,298 * Fri Feb 22 06:31:37 2019 GMT *
2019-02-22 06:31:37,298 * *
2019-02-22 06:31:37,298 * BEGIN EXECUTION *
2019-02-22 06:31:37,299 * *
2019-02-22 06:31:37,299 ********************************************************************************************
2019-02-22 06:31:37,343 Loading data...
2019-02-22 06:31:38,401 [Processing: ] 3.33%
2019-02-22 06:31:38,505 [Processing: ] 6.67%
2019-02-22 06:31:38,614 [Processing: ] 10.00%
2019-02-22 06:31:38,720 [Processing: ] 13.33%
2019-02-22 06:31:38,822 [Processing: ] 16.67%
2019-02-22 06:31:38,925 [Processing: ] 20.00%
2019-02-22 06:31:39,023 [Processing: ] 23.33%
2019-02-22 06:31:39,123 [Processing: ] 26.67%
2019-02-22 06:31:39,223 [Processing: ] 30.00%
2019-02-22 06:31:39,311 [Processing: ] 33.33%
2019-02-22 06:31:39,396 [Processing: ] 36.67%
2019-02-22 06:31:39,481 [Processing: ] 40.00%
2019-02-22 06:31:39,569 [Processing: ] 43.33%
2019-02-22 06:31:39,664 [Processing: ] 46.67%
2019-02-22 06:31:39,753 [Processing: ] 50.00%
2019-02-22 06:31:39,843 [Processing: ] 53.33%
2019-02-22 06:31:39,929 [Processing: ] 56.67%
2019-02-22 06:31:40,015 [Processing: ] 60.00%
2019-02-22 06:31:40,102 [Processing: ] 63.33%
2019-02-22 06:31:40,189 [Processing: ] 66.67%
2019-02-22 06:31:40,272 [Processing: ] 70.00%
2019-02-22 06:31:40,359 [Processing: ] 73.33%
2019-02-22 06:31:40,443 [Processing: ] 76.67%
2019-02-22 06:31:40,529 [Processing: ] 80.00%
2019-02-22 06:31:40,615 [Processing: ] 83.33%
2019-02-22 06:31:40,701 [Processing: ] 86.67%
2019-02-22 06:31:40,788 [Processing: ] 90.00%
2019-02-22 06:31:40,796 [Processing: ] 93.33%
2019-02-22 06:31:40,802 [Processing: ] 96.67%
2019-02-22 06:31:40,810 [Processing: ] 100.00%
2019-02-22 06:31:40,836 ********************************************************************************************
2019-02-22 06:31:40,837 * *
2019-02-22 06:31:40,837 * icclim V4.2.13 *
2019-02-22 06:31:40,837 * *
2019-02-22 06:31:40,837 * *
2019-02-22 06:31:40,837 * Fri Feb 22 06:31:40 2019 GMT *
2019-02-22 06:31:40,837 * *
2019-02-22 06:31:40,837 * END EXECUTION *
2019-02-22 06:31:40,837 * *
2019-02-22 06:31:40,837 * CP SECS = 11.272 *
2019-02-22 06:31:40,837 * *
2019-02-22 06:31:40,837 ********
and when I try to open
dset = xr.open_dataset('test.nc')
dset
<xarray.Dataset>
Dimensions: ()
size of nc file is 47bytes
what am I missing
FYI my data is monthly data though
I could not reproduce the bug. Can you try the latest 4.2.16 release?
Icclim installation has been reworked. With version 5.0.0 pip install icclim is now available and conda install will be coming soon.
Thus I'm closing this issue as it seems it is only relevant for icclim 4.x.x.
Feel free to reopen or create a new one if the issue persists in 5.0.0.