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This commit updates the python code to work with python 3 and with a
newer version of matplotlib.
- zip_longest -> izip_longest
- fix tick marks for log plots
- scipy.misc -> scipy.special
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This commit adds a first draft of a script to plot the michel energy
distribution and particle id histograms for data and Monte Carlo and to
plot the energy bias and resolution for stopping muons.
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This commit adds a first draft of a script called chi2. This script calculates
a chi2 for the null hypothesis test if the events in the energy range 20 MeV -
10 GeV match what we expect from atmospheric neutrino events.
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This commit contains the following updates:
- remove hack to get rid of low energy events in plot-energy since while
writing the unidoc I realized it's not necessary now that we add +100 to
multi-particle fits
- update Ockham factor to use an energy resolution of 5%
- update submit-grid-jobs to submit jobs according to the following criteria:
- always submit prompt events with no data cleaning cuts
- submit 10% of prompt flasher events
- submit all other prompt events
- submit followers only if they have no data cleaning cuts
- update submit-grid-jobs to place the nhit cut of 100 on the calibrated nhit
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This commit contains the following small updates:
- create a setup_matplotlib() function to set up matplotlib correctly depending
on if we are saving the plots or just displaying them
- change default font size to 12 when displaying plots
- switch to using logarithmic bins in plot-energy
- fix despine() function when x axis is logarithmic
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This commit adds an sddm python package to the utils/ folder. This allows me to
consolidate code used across all the various scripts. This package is now
installed by default to /home/tlatorre/local/lib/python2.7/site-packages so you
should add the following to your .bashrc file:
export PYTHONPATH=$HOME/local/lib/python2.7/site-packages/:$PYTHONPATH
before using the scripts installed to ~/local/bin.
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more than one fit per particle combo
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This commit adds the --save command line argument to plot-energy to save either
the corner plots or the energy distribution plots. It also updates the code to
make plots similar to plot-fit-results.
In addition there are a bunch of other small changes:
- plot the theoretical Michel spectrum for free muons
- energy plots now assume there are only a max of 2 particles fit for each event
- display particle IDs as letters instead of numbers, i.e. 2022 -> eu
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To select stopping muons we simply look for the muons before a Michel event.
The muon distance is calculated by first projecting the muon fit back to the
PSUP along the fitted direction and then taking the distance between this point
and the fitted position of the Michel event. I then calculate the expected
kinetic energy of the muon by using the muon lookup tables of the CSDA range to
convert the distance to an energy.
I also changed a few other things like changing as_index=False ->
group_keys=False when grouping events. The reason for this is just that if we
do this we don't have to reset the index and drop the new index after calling
apply().
I also fixed a small bug I had introduced recently where I selected only prompt
events before finding the michel events and atmospheric events.
This commit updates the plot-energy script to plot the energy bias and resolution for stopping muons by computing the expected
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This commit adds a script to calculate the background contamination using a
method inspired by the bifurcated analysis method used in SNO. The method works
by looking at the distribution of several high level variables (radius, udotr,
psi, and reconstructed z position) for events tagged by the different data
cleaning cuts and assuming that any background events which sneak past the data
cleaning cuts will have a similar distribution (for certain backgrounds this is
assumed and for others I will actually test this assumption. For more details
see the unidoc). Then, by looking at the distribution of these high level
variables for all the untagged events we can use a maximum likelihood fit to
determine the residual contamination.
There are also a few other updates to the plot-energy script:
- add a --dc command line argument to plot corner plots for the high level
variables used in the contamination analysis
- add a fudge factor to the Ockham factor of 100 per extra particle
- fix a bug by correctly setting the final kinetic energy to the sum of the
individual kinetic energies instead of just the first particle
- fix calculation of prompt events by applying at the run level
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This commit updates plot-energy to select prompt events before applying the
data cleaning cuts. This fixes an issue where we might accidentally classify an
event as a prompt event even if it came after an event that was flagged by data
cleaning. For example, suppose there was a breakdown but for whatever reason
the event immediately after the breakdown wasn't tagged (ignoring the fact that
we apply a breakdown follower cut). If we apply the data cleaning first and
then the prompt event selection, that event would be a part of the prompt
events.
There are several other small updates to plot-energy:
- fix bug in 00-orphan cut
- make michel event selection a separate function
- make atmospheric tag into a separate function
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This commit adds the sub_run variable to the ev array in the HDF5 output file
and updates plot-energy to order the events using the run and sub_run
variables. This fixes a potential issue where I was sorting by GTID before, but
the GTID can wrap around and so isn't guaranteed to put the events in the right
order.
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This commit fixes the FTS cut so that it returns 1 when the event is flagged as
failing the cut. Previously, the function returned the following:
not enough PMT pairs: 0 (fail)
median time > 6.8 ns: 0 (fail)
otherwise: 1 (pass)
This had two issues: the return value wasn't consistent with the rest of the
data cleaning cuts and it should pass if there aren't enough PMT pairs.
Now, I fixed the not enough PMT pairs case and made the return value consistent
with the rest of the data cleaning cuts:
not enough PMT pairs: 0 (pass)
median time > 6.8 ns: 1 (fail)
otherwise: 0 (pass)
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This commit fixes two small bugs in the plotting scripts. First, after the HDF5
commit I wasn't correctly computing the particle ID string which I had been
using before which was needed in order to plot things correctly. Second, I
realized that the dataframe groupby function first() actually selects the first
non-null column from each group! What I really wanted was the first row from
each group, so all instances of .first() were updated to .nth(0).
See https://stackoverflow.com/questions/20067636/pandas-dataframe-get-first-row-of-each-group.
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- apply muon follower and muon cuts to atmospheric sample
- print warnings in red
- fix how events with fmin = nan are counted
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Tidy up the code in the script by creating a function to plot the energy
distributions for each particle combo. Also fixed a bug which was causing the
neutron follower cut not to be applied.
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This commit is a major update to the plot-energy script. The most significant
changes are:
- new prompt event selection
We now define prompt events as any event >= 100 nhit which is at least 250
ms away from the last 100 nhit event.
- add Michel electron event selection.
Michel electrons are now selected as any event between 800 ns and 20
microseconds after a muon or prompt event. Additionally they are required
to be >= 100 nhit and pass an extra set of data cleaning cuts (compared to
the prompt events).
- add an atmospheric "sideband"
I also updated the script to plot the energy distribution and particle ID
for all events that *do* have a neutron follower as a kind of sideband
which should contain only atmospheric events.
- plot muon energy spectrum and angular distribution
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