%matplotlib inline
import pandas as pd
import socket
host = socket.getfqdn()
from core import load, zoom, calc, save,plots,monitor
#reload funcs after updating ./core/*.py
import importlib
importlib.reload(load)
importlib.reload(zoom)
importlib.reload(calc)
importlib.reload(save)
importlib.reload(plots)
importlib.reload(monitor)
<module 'core.monitor' from '/ccc/work/cont003/gen7420/odakatin/monitor-sedna/notebook/core/monitor.py'>
# 'month': = 'JOBID' almost month but not really,
# If you submit the job with job scheduler, above
#below are list of enviroment variable one can pass
#%env local='2"
# local : if True run dask local cluster, if not true, put number of workers
# setted in the 'local'
# if no 'local ' given, local will be setted automatically to 'True'
#%env ychunk='2'
#%env tchunk='2'
# controls chunk. 'False' sets no modification from original netcdf file's chunk.
# ychunk=10 will group the original netcdf file to 10 by 10
# tchunk=1 will chunk the time coordinate one by one
#%env control=FWC_SSH
# name of control file to be used for computation/plots/save/
#%env file_exp=
# 'file_exp': Which 'experiment' name is it?
#. this corresopnds to intake catalog name without path and .yaml
#%env year=
# for Validation, this correspoinds to path/year/month 's year
# for monitoring, this corresponids to 'date' having * means do all files in the monitoring directory
# setting it as *0[0-9] &*1[0-9]& *[2-3][0-9], the job can be separated in three lots.
#%env month=
# for monitoring this corresponds to file path path-XIOS.{month}/
#
#%env save= proceed saving? True or False , Default is setted as True
#%env plot= proceed plotting? True or False , Default is setted as True
#%env calc= proceed computation? or just load computed result? True or False , Default is setted as True
#%env save=False
%%time
# 'savefig': Do we save output in html? or not. keep it true.
savefig=True
client,cluster,control,catalog_url,month,year,daskreport,outputpath = load.set_control(host)
!mkdir -p $outputpath
!mkdir -p $daskreport
client
local True using host= irene4346.c-irene.mg1.tgcc.ccc.cea.fr starting dask cluster on local= True workers 16 10000000000 False not local in tgcc rome local cluster starting This code is running on irene4346.c-irene.mg1.tgcc.ccc.cea.fr using SEDNA_DELTA_MONITOR file experiment, read from ../lib/SEDNA_DELTA_MONITOR.yaml on year= 2012 on month= 02 outputpath= ../results/SEDNA_DELTA_MONITOR/ daskreport= ../results/dask/6253831irene4346.c-irene.mg1.tgcc.ccc.cea.fr_SEDNA_DELTA_MONITOR_02M_Mooring/ CPU times: user 420 ms, sys: 230 ms, total: 650 ms Wall time: 12.5 s
Client
|
Cluster
|
df=load.controlfile(control)
#Take out 'later' tagged computations
#df=df[~df['Value'].str.contains('later')]
df
Value | Inputs | Equation | Zone | Plot | Colourmap | MinMax | Unit | Oldname | Unnamed: 10 | |
---|---|---|---|---|---|---|---|---|---|---|
Mooring_Arc_B | gridS.vosaline,gridT.votemper,param.depth,para... | data | Arc_B | Mooring | rainbow | {'vosaline': (28.0,34.4), 'votemper': (-2.0,2.0)} | None | x | ||
Mooring_Eur_B | gridS.vosaline,gridT.votemper,param.depth,para... | data | Eur_B | Mooring | rainbow | {'vosaline': (32.0,35.0), 'votemper': (-2.0,3.0)} | None | x |
Each computation consists of
%%time
import os
calcswitch=os.environ.get('calc', 'True')
loaddata=((df.Inputs != '').any())
print('calcswitch=',calcswitch,'df.Inputs != nothing',loaddata)
data = load.datas(catalog_url,df.Inputs,month,year,daskreport) if ((calcswitch=='True' )*loaddata) else 0
data
calcswitch= False df.Inputs != nothing True CPU times: user 685 µs, sys: 0 ns, total: 685 µs Wall time: 565 µs
0
%%time
monitor.auto(df,data,savefig,daskreport,outputpath,file_exp='SEDNA'
)
#calc= False #save= False #plot= True Zone='Arc_B' Value='Mooring_Arc_B' cmap='rainbow' clabel='None' clim= {'vosaline': (28.0, 34.4), 'votemper': (-2.0, 2.0)} outputpath='../results/SEDNA_DELTA_MONITOR/' nc_outputpath='../nc_results/SEDNA_DELTA_MONITOR/' filename='SEDNA_Mooring_Arc_B_Mooring_Arc_B' #3 no computing , loading starts dtaa=save.load_data(plot=Plot,path=nc_outputpath,filename=filename) start saving data load 1Dnc file from ../nc_results/SEDNA_DELTA_MONITOR/../*/SEDNA_Mooring_Arc_B_Mooring_Arc_B*.nc load computed data completed
<xarray.Dataset> Dimensions: (t: 59, z: 102) Coordinates: * t (t) object 2012-01-01 12:00:00 ... 2012-02-28 12:00:00 y int64 ... x int64 ... * z (z) int64 1 2 3 4 5 6 7 8 9 10 ... 94 95 96 97 98 99 100 101 102 nav_lat float32 ... mask (z) int8 dask.array<chunksize=(102,), meta=np.ndarray> mask2d int8 ... nav_lon float32 ... depth (z) float32 dask.array<chunksize=(102,), meta=np.ndarray> Data variables: vosaline (t, z) float32 dask.array<chunksize=(31, 102), meta=np.ndarray> votemper (t, z) float32 dask.array<chunksize=(31, 102), meta=np.ndarray>
array([cftime.DatetimeNoLeap(2012, 1, 1, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 1, 2, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 1, 3, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 1, 4, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 1, 5, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 1, 6, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 1, 7, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 1, 8, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 1, 9, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 1, 10, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 1, 11, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 1, 12, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 1, 13, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 1, 14, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 1, 15, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 1, 16, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 1, 17, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 1, 18, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 1, 19, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 1, 20, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 1, 21, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 1, 22, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 1, 23, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 1, 24, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 1, 25, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 1, 26, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 1, 27, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 1, 28, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 1, 29, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 1, 30, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 1, 31, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 2, 1, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 2, 2, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 2, 3, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 2, 4, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 2, 5, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 2, 6, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 2, 7, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 2, 8, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 2, 9, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 2, 10, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 2, 11, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 2, 12, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 2, 13, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 2, 14, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 2, 15, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 2, 16, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 2, 17, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 2, 18, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 2, 19, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 2, 20, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 2, 21, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 2, 22, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 2, 23, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 2, 24, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 2, 25, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 2, 26, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 2, 27, 12, 0, 0, 0), cftime.DatetimeNoLeap(2012, 2, 28, 12, 0, 0, 0)], dtype=object)
array(4967)
array(2471)
array([ 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 57, 58, 59, 60, 61, 62, 63, 64, 65, 66, 67, 68, 69, 70, 71, 72, 73, 74, 75, 76, 77, 78, 79, 80, 81, 82, 83, 84, 85, 86, 87, 88, 89, 90, 91, 92, 93, 94, 95, 96, 97, 98, 99, 100, 101, 102])
array(77.99932, dtype=float32)
|
array(1, dtype=int8)
array(-149.97148, dtype=float32)
|
|
|
#5 Plotting filename= plots.Mooring(data,path=outputpath,filename=filename,save=savefig,cmap=cmap,clim=clim,clabel=clabel)
WARNING:param.QuadMeshPlot03639: Converting cftime.datetime from a non-standard calendar (noleap) to a standard calendar for plotting. This may lead to subtle errors in formatting dates, for accurate tick formatting switch to the matplotlib backend. WARNING:param.QuadMeshPlot03639: Converting cftime.datetime from a non-standard calendar (noleap) to a standard calendar for plotting. This may lead to subtle errors in formatting dates, for accurate tick formatting switch to the matplotlib backend. WARNING:param.QuadMeshPlot03639: Converting cftime.datetime from a non-standard calendar (noleap) to a standard calendar for plotting. This may lead to subtle errors in formatting dates, for accurate tick formatting switch to the matplotlib backend.
../results/SEDNA_DELTA_MONITOR/SEDNA_Mooring_Arc_B_Mooring_Arc_B_20120101-20120228.html starts plotting
WARNING:param.QuadMeshPlot03697: Converting cftime.datetime from a non-standard calendar (noleap) to a standard calendar for plotting. This may lead to subtle errors in formatting dates, for accurate tick formatting switch to the matplotlib backend. WARNING:param.QuadMeshPlot03697: Converting cftime.datetime from a non-standard calendar (noleap) to a standard calendar for plotting. This may lead to subtle errors in formatting dates, for accurate tick formatting switch to the matplotlib backend. WARNING:param.QuadMeshPlot03697: Converting cftime.datetime from a non-standard calendar (noleap) to a standard calendar for plotting. This may lead to subtle errors in formatting dates, for accurate tick formatting switch to the matplotlib backend.
../results/SEDNA_DELTA_MONITOR/SEDNA_Mooring_Arc_B_Mooring_Arc_B_20120101-20120228.html created
Zone='Eur_B' Value='Mooring_Eur_B' cmap='rainbow' clabel='None' clim= {'vosaline': (32.0, 35.0), 'votemper': (-2.0, 3.0)} outputpath='../results/SEDNA_DELTA_MONITOR/' nc_outputpath='../nc_results/SEDNA_DELTA_MONITOR/' filename='SEDNA_Mooring_Eur_B_Mooring_Eur_B' #3 no computing , loading starts dtaa=save.load_data(plot=Plot,path=nc_outputpath,filename=filename) start saving data load 1Dnc file from ../nc_results/SEDNA_DELTA_MONITOR/../*/SEDNA_Mooring_Eur_B_Mooring_Eur_B*.nc
--------------------------------------------------------------------------- OSError Traceback (most recent call last) <timed eval> in <module> /ccc/work/cont003/gen7420/odakatin/monitor-sedna/notebook/core/monitor.py in auto(df, val, savefig, daskreport, outputpath, file_exp) 68 print('dtaa=save.load_data(plot=Plot,path=nc_outputpath,filename=filename)' ) 69 with performance_report(filename=daskreport+"_calc_"+step.Value+".html"): ---> 70 data=save.load_data(plot=Plot,path=nc_outputpath,filename=filename) 71 #saveswitch=False 72 display(data) /ccc/work/cont003/gen7420/odakatin/monitor-sedna/notebook/core/save.py in load_data(plot, path, filename) 32 data=load_integral(path,filename) 33 elif 'Mooring' in plot: ---> 34 data=load_integral(path,filename) 35 elif 'section' in plot: 36 data=load_twoD(path,filename,nested=False) /ccc/work/cont003/gen7420/odakatin/monitor-sedna/notebook/core/save.py in load_integral(path, filename) 76 ,concat_dim=('t') 77 ,combine='by_coords' ---> 78 ,coords='minimal') 79 80 ~/monitor/lib/python3.7/site-packages/xarray/backends/api.py in open_mfdataset(paths, chunks, concat_dim, compat, preprocess, engine, lock, data_vars, coords, combine, autoclose, parallel, join, attrs_file, **kwargs) 919 920 if not paths: --> 921 raise OSError("no files to open") 922 923 # If combine='by_coords' then this is unnecessary, but quick. OSError: no files to open