sphinx-build -b html -d _build/doctrees   . _build/html
Running Sphinx v1.4.8
making output directory...
loading pickled environment... not yet created
[autosummary] generating autosummary for: api.rst
WARNING: [autosummary] failed to import 'km3pipe.tools.geant2pdf': no module named km3pipe.tools.geant2pdf
[autosummary] generating autosummary for: /home/moritz/km3net/km3pipe/docs/api/km3pipe.astro.to_frame.rst, /home/moritz/km3net/km3pipe/docs/api/km3pipe.core.AanetGeometry.rst, /home/moritz/km3net/km3pipe/docs/api/km3pipe.core.Blob.rst, /home/moritz/km3net/km3pipe/docs/api/km3pipe.core.Geometry.rst, /home/moritz/km3net/km3pipe/docs/api/km3pipe.core.Module.rst, /home/moritz/km3net/km3pipe/docs/api/km3pipe.core.Pipeline.rst, /home/moritz/km3net/km3pipe/docs/api/km3pipe.core.Pump.rst, /home/moritz/km3net/km3pipe/docs/api/km3pipe.core.Run.rst, /home/moritz/km3net/km3pipe/docs/api/km3pipe.dataclasses.ArrayTaco.rst, /home/moritz/km3net/km3pipe/docs/api/km3pipe.dataclasses.EventInfo.rst, ..., /home/moritz/km3net/km3pipe/docs/api/km3pipe.io.H5Chain.rst, /home/moritz/km3net/km3pipe/docs/api/km3pipe.io.HDF5Pump.rst, /home/moritz/km3net/km3pipe/docs/api/km3pipe.io.HDF5Sink.rst, /home/moritz/km3net/km3pipe/docs/api/km3pipe.io.JPPPump.rst, /home/moritz/km3net/km3pipe/docs/api/km3pipe.io.PicklePump.rst, /home/moritz/km3net/km3pipe/docs/api/km3pipe.logger.LogIO.rst, /home/moritz/km3net/km3pipe/docs/api/km3pipe.srv.ClientManager.rst, /home/moritz/km3net/km3pipe/docs/api/km3pipe.tools.camelise.rst, /home/moritz/km3net/km3pipe/docs/api/km3pipe.tools.decamelise.rst, /home/moritz/km3net/km3pipe/docs/api/km3pipe.tools.pdg2name.rst
Executing file ../examples/plot_astro_orca.py
../examples/plot_astro_orca.py ran in : 1.1 seconds

Executing file ../examples/plot_colourmap_pitfalls.py
../examples/plot_colourmap_pitfalls.py ran in : 0.4 seconds

Executing file ../examples/plot_tot_histogram.py
../examples/plot_tot_histogram.py ran in : 0.82 seconds

Executing file ../examples/plot_zt.py
../examples/plot_zt.py ran in : 3.9 seconds

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Computation time summary:
	- plot_zt.py : 3.9 sec
	- plot_astro_orca.py : 1.1 sec
	- plot_tot_histogram.py : 0.82 sec
	- plot_colourmap_pitfalls.py : 0.4 sec
building [mo]: targets for 0 po files that are out of date
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updating environment: 56 added, 0 changed, 0 removed
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/usr/lib/python3.5/site-packages/matplotlib/font_manager.py:1288: UserWarning: findfont: Font family ['cursive'] not found. Falling back to Bitstream Vera Sans
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['H5Chain(filenames)', ':module: km3pipe.io', '', '', '', 'Read/write multiple HDF5 files as ``pandas.DataFrame``.', '', 'It is impliend that all files share the same group/tables', 'structure and naming.', '', 'This class mitigates 3 issues:', '* read different amounts of events from each file', '    * (100 from A, 20 from B)', "* don't slice all tables equally, e.g.:", '    * read every row from jgandalf', '    * read every 2nd row from mc_tracks', '* merge all tables below a group into a single table', '    * /reco/jgandalf', '    * /reco/dusj', '', ':Parameters:', '', '    **filenames: list(str)**', '', '        ', '', '.. rubric:: Examples', '', '', ">>> filenames = ['numu_cc.h5', 'anue_nc.h5']", ">>> n_evts = {'numu_cc.h5': None, 'anue_nc.h5': 100, }", "# either tables keys below '/', or group names", ">>> keys = ['hits', 'reco']", ">>> step = {'mc_tracks': 2}", '', '>>> c = H5Chain(filenames)', '>>> coll = c(n_evts, keys, step)', "{'mc_tracks': pd.Dataframe, 'hits' pd.DataFrame, 'reco': dataframe}", '', '>>> # these are pandas Dataframes', ">>> X = coll['reco']", ">>> wgt = coll['event_info']['weights_w2']", ">>> Y_ene = coll['mc_tracks']['energy']", '', '.. rubric:: Methods', '', '.. autosummary::', '   :toctree:', '', '   __call__', '   close']:10: ERROR: Unexpected indentation.
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Installation
===========
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looking for now-outdated files... none found
pickling environment... done
checking consistency... /home/moritz/km3net/km3pipe/docs/notebooks/h5_ant.ipynb.rst:: WARNING: document isn't included in any toctree
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done
preparing documents... done
writing output... [  1%] api
writing output... [  3%] api/km3pipe.astro.to_frame
writing output... [  5%] api/km3pipe.core.AanetGeometry
writing output... [  7%] api/km3pipe.core.Blob
writing output... [  8%] api/km3pipe.core.Geometry
writing output... [ 10%] api/km3pipe.core.Module
writing output... [ 12%] api/km3pipe.core.Pipeline
writing output... [ 14%] api/km3pipe.core.Pump
writing output... [ 16%] api/km3pipe.core.Run
writing output... [ 17%] api/km3pipe.dataclasses.ArrayTaco
writing output... [ 19%] api/km3pipe.dataclasses.EventInfo
writing output... [ 21%] api/km3pipe.dataclasses.Hit
writing output... [ 23%] api/km3pipe.dataclasses.HitSeries
writing output... [ 25%] api/km3pipe.dataclasses.Reco
writing output... [ 26%] api/km3pipe.dataclasses.Track
writing output... [ 28%] api/km3pipe.dataclasses.TrackSeries
writing output... [ 30%] api/km3pipe.db.DBManager
writing output... [ 32%] api/km3pipe.hardware.Detector
writing output... [ 33%] api/km3pipe.hardware.PMT
writing output... [ 35%] api/km3pipe.io.AanetPump
writing output... [ 37%] api/km3pipe.io.CHPump
writing output... [ 39%] api/km3pipe.io.CLBPump
writing output... [ 41%] api/km3pipe.io.DAQPump
writing output... [ 42%] api/km3pipe.io.EvtPump
writing output... [ 44%] api/km3pipe.io.H5Chain
writing output... [ 46%] api/km3pipe.io.HDF5Pump
writing output... [ 48%] api/km3pipe.io.HDF5Sink
writing output... [ 50%] api/km3pipe.io.JPPPump
writing output... [ 51%] api/km3pipe.io.PicklePump
writing output... [ 53%] api/km3pipe.logger.LogIO
writing output... [ 55%] api/km3pipe.srv.ClientManager
writing output... [ 57%] api/km3pipe.tools.camelise
writing output... [ 58%] api/km3pipe.tools.decamelise
writing output... [ 60%] api/km3pipe.tools.pdg2name
writing output... [ 62%] auto_examples/index
writing output... [ 64%] auto_examples/plot_astro_orca
writing output... [ 66%] auto_examples/plot_colourmap_pitfalls
writing output... [ 67%] auto_examples/plot_tot_histogram
writing output... [ 69%] auto_examples/plot_zt
writing output... [ 71%] changelog
writing output... [ 73%] cmd
writing output... [ 75%] contribute
writing output... [ 76%] dev
writing output... [ 78%] doc
writing output... [ 80%] examples
writing output... [ 82%] hdf5
writing output... [ 83%] index
writing output... [ 85%] install
writing output... [ 87%] notebooks/h5_ant.ipynb
writing output... [ 89%] notebooks/hdf5_convert
writing output... [ 91%] notebooks/hdf5_convert.md
writing output... [ 92%] notebooks/pandas_read.md
writing output... [ 94%] notebooks/pid_read.md
writing output... [ 96%] pipeline
writing output... [ 98%] summary
writing output... [100%] user_guide

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generating indices... genindex py-modindex
highlighting module code... [  6%] km3pipe.io.aanet
highlighting module code... [ 12%] km3pipe.io.jpp
highlighting module code... [ 18%] km3pipe.db
highlighting module code... [ 25%] km3pipe.io.clb
highlighting module code... [ 31%] km3pipe.io.daq
highlighting module code... [ 37%] km3pipe.io.ch
highlighting module code... [ 43%] km3pipe.logger
highlighting module code... [ 50%] km3pipe.io.hdf5
highlighting module code... [ 56%] km3pipe.io.pickle
highlighting module code... [ 62%] km3pipe.srv
highlighting module code... [ 68%] km3pipe.tools
highlighting module code... [ 75%] km3pipe.dataclasses
highlighting module code... [ 81%] km3pipe.astro
highlighting module code... [ 87%] km3pipe.hardware
highlighting module code... [ 93%] km3pipe.io.evt
highlighting module code... [100%] km3pipe.core

writing additional pages... search
copying images... [ 11%] auto_examples/images/thumb/sphx_glr_plot_colourmap_pitfalls_thumb.png
copying images... [ 22%] auto_examples/images/sphx_glr_plot_tot_histogram_001.png
copying images... [ 33%] auto_examples/images/sphx_glr_plot_astro_orca_001.png
copying images... [ 44%] auto_examples/images/thumb/sphx_glr_plot_astro_orca_thumb.png
copying images... [ 55%] auto_examples/images/thumb/sphx_glr_plot_tot_histogram_thumb.png
copying images... [ 66%] auto_examples/images/thumb/sphx_glr_plot_zt_thumb.png
copying images... [ 77%] auto_examples/images/sphx_glr_plot_zt_001.png
copying images... [ 88%] auto_examples/images/sphx_glr_plot_colourmap_pitfalls_001.png
copying images... [100%] _static/PipeInspector_Screenshot.png

copying downloadable files... [ 12%] auto_examples/plot_colourmap_pitfalls.ipynb
copying downloadable files... [ 25%] auto_examples/plot_zt.ipynb
copying downloadable files... [ 37%] auto_examples/plot_tot_histogram.py
copying downloadable files... [ 50%] auto_examples/plot_colourmap_pitfalls.py
copying downloadable files... [ 62%] auto_examples/plot_tot_histogram.ipynb
copying downloadable files... [ 75%] auto_examples/plot_astro_orca.py
copying downloadable files... [ 87%] auto_examples/plot_zt.py
copying downloadable files... [100%] auto_examples/plot_astro_orca.ipynb

copying static files... done
copying extra files... done
dumping search index in English (code: en) ... done
dumping object inventory... done
build succeeded, 1350 warnings.
Embedding documentation hyperlinks in examples..
	processing: index.html
	processing: plot_astro_orca.html
	processing: plot_tot_histogram.html
	processing: plot_colourmap_pitfalls.html
	processing: plot_zt.html
[done]

Build finished. The HTML pages are in _build/html.
