%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
#%env lazy=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= irene4670.c-irene.mg1.tgcc.ccc.cea.fr starting dask cluster on local= True workers 16 10000000000 False rome local cluster starting This code is running on irene4670.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= 01 outputpath= ../results/SEDNA_DELTA_MONITOR/ daskreport= ../results/dask/6413732irene4670.c-irene.mg1.tgcc.ccc.cea.fr_SEDNA_DELTA_MONITOR_01M_Fluxnet/ CPU times: user 493 ms, sys: 160 ms, total: 653 ms Wall time: 18.8 s
Client-6593a3bf-1343-11ed-8f29-080038b93af9
| Connection method: Cluster object | Cluster type: distributed.LocalCluster |
| Dashboard: http://127.0.0.1:8787/status |
8cc78e16
| Dashboard: http://127.0.0.1:8787/status | Workers: 16 |
| Total threads: 128 | Total memory: 251.06 GiB |
| Status: running | Using processes: True |
Scheduler-625264ea-3ef3-42f9-8640-64fd0b8caff0
| Comm: tcp://127.0.0.1:36381 | Workers: 16 |
| Dashboard: http://127.0.0.1:8787/status | Total threads: 128 |
| Started: Just now | Total memory: 251.06 GiB |
| Comm: tcp://127.0.0.1:40858 | Total threads: 8 |
| Dashboard: http://127.0.0.1:40941/status | Memory: 15.69 GiB |
| Nanny: tcp://127.0.0.1:46472 | |
| Local directory: /tmp/dask-worker-space/worker-8clb0hdf | |
| Comm: tcp://127.0.0.1:42172 | Total threads: 8 |
| Dashboard: http://127.0.0.1:39674/status | Memory: 15.69 GiB |
| Nanny: tcp://127.0.0.1:33505 | |
| Local directory: /tmp/dask-worker-space/worker-m99qc6i6 | |
| Comm: tcp://127.0.0.1:33500 | Total threads: 8 |
| Dashboard: http://127.0.0.1:36093/status | Memory: 15.69 GiB |
| Nanny: tcp://127.0.0.1:44713 | |
| Local directory: /tmp/dask-worker-space/worker-ny7yeuyt | |
| Comm: tcp://127.0.0.1:44895 | Total threads: 8 |
| Dashboard: http://127.0.0.1:38517/status | Memory: 15.69 GiB |
| Nanny: tcp://127.0.0.1:36922 | |
| Local directory: /tmp/dask-worker-space/worker-794yr0g2 | |
| Comm: tcp://127.0.0.1:46729 | Total threads: 8 |
| Dashboard: http://127.0.0.1:36162/status | Memory: 15.69 GiB |
| Nanny: tcp://127.0.0.1:36090 | |
| Local directory: /tmp/dask-worker-space/worker-6tg9u5yt | |
| Comm: tcp://127.0.0.1:33175 | Total threads: 8 |
| Dashboard: http://127.0.0.1:41957/status | Memory: 15.69 GiB |
| Nanny: tcp://127.0.0.1:33068 | |
| Local directory: /tmp/dask-worker-space/worker-qnahrvf7 | |
| Comm: tcp://127.0.0.1:41779 | Total threads: 8 |
| Dashboard: http://127.0.0.1:42587/status | Memory: 15.69 GiB |
| Nanny: tcp://127.0.0.1:33671 | |
| Local directory: /tmp/dask-worker-space/worker-u0f26982 | |
| Comm: tcp://127.0.0.1:38838 | Total threads: 8 |
| Dashboard: http://127.0.0.1:35720/status | Memory: 15.69 GiB |
| Nanny: tcp://127.0.0.1:46134 | |
| Local directory: /tmp/dask-worker-space/worker-57fwzx07 | |
| Comm: tcp://127.0.0.1:34060 | Total threads: 8 |
| Dashboard: http://127.0.0.1:34825/status | Memory: 15.69 GiB |
| Nanny: tcp://127.0.0.1:45192 | |
| Local directory: /tmp/dask-worker-space/worker-hokp1fbh | |
| Comm: tcp://127.0.0.1:40845 | Total threads: 8 |
| Dashboard: http://127.0.0.1:35018/status | Memory: 15.69 GiB |
| Nanny: tcp://127.0.0.1:35906 | |
| Local directory: /tmp/dask-worker-space/worker-15ivsjqb | |
| Comm: tcp://127.0.0.1:43168 | Total threads: 8 |
| Dashboard: http://127.0.0.1:38562/status | Memory: 15.69 GiB |
| Nanny: tcp://127.0.0.1:34437 | |
| Local directory: /tmp/dask-worker-space/worker-mytg18zw | |
| Comm: tcp://127.0.0.1:37563 | Total threads: 8 |
| Dashboard: http://127.0.0.1:46591/status | Memory: 15.69 GiB |
| Nanny: tcp://127.0.0.1:46826 | |
| Local directory: /tmp/dask-worker-space/worker-8mb4so3i | |
| Comm: tcp://127.0.0.1:37736 | Total threads: 8 |
| Dashboard: http://127.0.0.1:46550/status | Memory: 15.69 GiB |
| Nanny: tcp://127.0.0.1:41309 | |
| Local directory: /tmp/dask-worker-space/worker-8wb7vk2i | |
| Comm: tcp://127.0.0.1:44319 | Total threads: 8 |
| Dashboard: http://127.0.0.1:45245/status | Memory: 15.69 GiB |
| Nanny: tcp://127.0.0.1:34015 | |
| Local directory: /tmp/dask-worker-space/worker-8zt8grlq | |
| Comm: tcp://127.0.0.1:39901 | Total threads: 8 |
| Dashboard: http://127.0.0.1:36739/status | Memory: 15.69 GiB |
| Nanny: tcp://127.0.0.1:37350 | |
| Local directory: /tmp/dask-worker-space/worker-006v3c9o | |
| Comm: tcp://127.0.0.1:42787 | Total threads: 8 |
| Dashboard: http://127.0.0.1:38830/status | Memory: 15.69 GiB |
| Nanny: tcp://127.0.0.1:45095 | |
| Local directory: /tmp/dask-worker-space/worker-8p0wa3n0 | |
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 | |
|---|---|---|---|---|---|---|---|---|---|---|
| Fluxnet | gridV.vomecrty,param.e3v_0,param.e1v,param.mas... | calc.Fluxnet(data) | FramS_All | Fluxnet_integrals | None | ((-10,10),(-10,50) ,(-150,50),(-25,5) ) | (Sv,TW, mSv,10^-2 Sv) | I-6 | ||
| Fluxnet | gridV.vomecrty,param.e3v_0,param.e1v,param.mas... | calc.Fluxnet(data) | Davis | Fluxnet_integrals | None | ((-5.0,5.0),(-25,27) ,(-200,50),(-9,5) ) | (Sv,TW, mSv,10^-2 Sv) | I-6 | ||
| Fluxnet | gridV.vomecrty,param.e3v_0,param.e1v,param.mas... | calc.Fluxnet(data) | Bering | Fluxnet_integrals | None | ((-2,2),(-10,50) ,(-150,50),(-2,4) ) | (Sv,TW, mSv,10^-2 Sv) | I-6 |
Each computation consists of
%%time
import os
calcswitch=os.environ.get('calc', 'True')
lazy=os.environ.get('lazy','False' )
loaddata=((df.Inputs != '').any())
print('calcswitch=',calcswitch,'df.Inputs != nothing',loaddata, 'lazy=',lazy)
data = load.datas(catalog_url,df.Inputs,month,year,daskreport,lazy=lazy) if ((calcswitch=='True' )*loaddata) else 0
data
calcswitch= False df.Inputs != nothing True lazy= False CPU times: user 330 µs, sys: 56 µs, total: 386 µs Wall time: 371 µs
0
%%time
monitor.auto(df,data,savefig,daskreport,outputpath,file_exp='SEDNA'
)
#calc= False #save= False #plot= True
--------------------------------------------------------------------------- AttributeError Traceback (most recent call last) File <timed eval>:1, in <module> File /ccc/work/cont003/gen7420/odakatin/monitor-sedna/notebook/core/monitor.py:26, in auto(df, val, savefig, daskreport, outputpath, file_exp) 23 print('#plot=',plotswitch ) 24 for step in df.itertuples(): 25 # 1. Create data set ---> 26 optimize_dataset(val) 27 data=val 28 Value=step.Value File /ccc/work/cont003/gen7420/odakatin/monitor-sedna/notebook/core/monitor.py:100, in optimize_dataset(ds) 98 def optimize_dataset(ds): 99 import dask --> 100 for varname, da in ds.data_vars.items(): 101 #print(varname) 102 da=da.data 103 (da,)=dask.optimize(da) AttributeError: 'int' object has no attribute 'data_vars'