python - Huge memory usage in pyROOT -


my pyroot analysis code using huge amounts of memory. have reduced problem example code below:

from root import tchain, th1d  # load file, chain chain = tchain("somechain") infile = "somefile.root" chain.add(infile)  nentries = chain.getentries()  # declare histograms h_ntracks = th1d("h_ntracks", "h_ntracks", 16, -0.5, 15.5) h_e = th1d("h_e","h_e",100,-0.1,6.0) h_p = th1d("h_p", "h_p", 100, -0.1, 6.0) h_eclenergy = th1d("h_eclenergy","h_eclenergy",100,-0.1,14.0)  # loop on entries jentry in range(nentries):    # load entry    entry = chain.getentry(jentry)     # define variables    cands = chain.__ncandidates__    ntracks = chain.ntracks    e = chain.usecmsframe__boe__bc    p = chain.usecmsframe__bop__bc    eclenergy = chain.usecmsframe__boeclenergy__bc     # fill histos    h_ntracks.fill(ntracks)    h_eclenergy.fill(eclenergy)     cand in range(cands):       h_e.fill(e[cand])       h_p.fill(p[cand])

where somefile.root root file 700,000 entries , multiple particle candidates per entry.

when run script uses ~600 mb of memory. if remove line

h_p.fill(p[cand])

it uses ~400 mb.

if remove line

h_e.fill(e[cand])

it uses ~150 mb.

if remove lines

h_ntracks.fill(ntracks) h_eclenergy.fill(eclenergy)

there no further reduction in memory usage.

it seems every histogram fill of form

h_variable.fill(variable[cand])

(i.e. histograms filled once per candidate per entry, opposed histograms filled once per entry) use ~200 mb of memory. becomes serious problem when have 10 or more histograms because using gbs of memory , exceeding limits of computing system. have solution?

update: think python3 problem.

if take script in original post (above) , run using python2 memory usage ~200 mb, compared ~600 mb python3. if try replicate problem 2 using long variable names, job still uses ~200 mb of memory python2, compared ~1.3 gb python3.

during googling came across few other accounts of people encountering memory leaks when using pyroot python3. seems still issue of python 3.6.2 , root 6.08/06, , moment must use python2 if want use pyroot.

so, using python2 appears "solution" now, it's not ideal. if has further information or suggestions i'd grateful hear you!


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