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Hi Miriam, <br>
<br>
I think I put that cut, because I feel it is dangerous just looking
into pass1 data, 0.00001 was corresponding to chi2/NDF = around 6, <br>
and put 1.7e-16 corresponds to chi2/NDF=20 (if I am not wrong).<br>
<br>
This was discussed in the analysis meetings, before we put this in
the steering file.<br>
<br>
Rafo<br>
<br>
<br>
<div class="moz-cite-prefix">On 1/31/19 2:35 PM, Solt, Matthew
Reagan wrote:<br>
</div>
<blockquote type="cite"
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<p style="margin-top:0;margin-bottom:0">Miriam,</p>
<p style="margin-top:0;margin-bottom:0"><br>
</p>
<p style="margin-top:0;margin-bottom:0">For some reason, it's
set at 1.7e-16 in the steering file:
<a
href="https://na01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgithub.com%2FJeffersonLab%2Fhps-java%2Fblob%2Fmaster%2Fsteering-files%2Fsrc%2Fmain%2Fresources%2Forg%2Fhps%2Fsteering%2Frecon%2FPhysicsRun2016FullRecon.lcsim&data=02%7C01%7Crafopar%40jlab.org%7Cb18072903ac543c4cc8608d687b33d45%7Cb4d7ee1f4fb34f0690372b5b522042ab%7C1%7C0%7C636845601240365635&sdata=zowqSQvWApwhIPQYZmnOji9z3ZKVVRA7MXDZHQ%2FTZhw%3D&reserved=0"
originalsrc="https://github.com/JeffersonLab/hps-java/blob/master/steering-files/src/main/resources/org/hps/steering/recon/PhysicsRun2016FullRecon.lcsim"
shash="A4c+/RC+TpRtZGptZug04FlSwNpOt7W6difMELcG3+y7jPK8aqnz3Mt6bhg9N7hp2CUMrWl9JFtPzsAArKt1Pg5US3XBPF0dPgTi4es2UKqUwGMEsR1eGwXvupsB/6IbC5eJqALByqqFoQ10mWQnl7znhb1576iRl9pHhGjbq5s="
class="OWAAutoLink" id="LPlnk813197" previewremoved="true"
moz-do-not-send="true">
https://github.com/JeffersonLab/hps-java/blob/master/steering-files/src/main/resources/org/hps/steering/recon/PhysicsRun2016FullRecon.lcsim</a></p>
<p style="margin-top:0;margin-bottom:0"><br>
</p>
<p style="margin-top:0;margin-bottom:0">No idea why, but I think
this value helped us a bit.</p>
<p style="margin-top:0;margin-bottom:0"><br>
</p>
<p style="margin-top:0;margin-bottom:0">Matt Solt<br>
</p>
</div>
<hr style="display:inline-block;width:98%" tabindex="-1">
<div id="divRplyFwdMsg" dir="ltr"><font style="font-size:11pt"
face="Calibri, sans-serif" color="#000000"><b>From:</b>
Diamond, Miriam <a class="moz-txt-link-rfc2396E" href="mailto:mdiamond@slac.stanford.edu"><mdiamond@slac.stanford.edu></a><br>
<b>Sent:</b> Thursday, January 31, 2019 11:22:26 AM<br>
<b>To:</b> Solt, Matthew Reagan; Graf, Norman A.; Graham,
Mathew Thomas; Maurik Holtrop<br>
<b>Cc:</b> <a class="moz-txt-link-abbreviated" href="mailto:hps-analysis@jlab.org">hps-analysis@jlab.org</a><br>
<b>Subject:</b> Re: [Hps-analysis] Vertex Chisq Probability
Cut?</font>
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Wait, how did the cut value get to be <span
style="font-family:Calibri,Helvetica,sans-serif,serif,EmojiFont;
font-size:16px">1.7e-16? The default is <span style="color:rgb(0,92,197); font-family:SFMono-Regular,Consolas,"Liberation Mono",Menlo,Courier,monospace; font-size:12px; white-space:pre; background-color:rgb(255,251,221)">0.00001</span>
(<a
href="https://na01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgithub.com%2FJeffersonLab%2Fhps-java%2Fblob%2Fmaster%2Frecord-util%2Fsrc%2Fmain%2Fjava%2Forg%2Fhps%2Frecord%2FStandardCuts.java%23L144&data=02%7C01%7Crafopar%40jlab.org%7Cb18072903ac543c4cc8608d687b33d45%7Cb4d7ee1f4fb34f0690372b5b522042ab%7C1%7C0%7C636845601240375640&sdata=A0Kcpgc8Tt9Gn9ZTY5q3CkUNOE%2F47dsywq46DW5ozjc%3D&reserved=0"
originalsrc="https://github.com/JeffersonLab/hps-java/blob/master/record-util/src/main/java/org/hps/record/StandardCuts.java#L144"
shash="d5gQRFidsbkfuZpyZSi/nXiDhifLI/i1AyXDkgPpZC3shFnnPE9qRIj0TNMCr0Wd9zWQJrioPEB4UkUddonA9vz0zTBSC+zDAkXbqeO05NN/R4aEbudmhuGm6qH2D94MCZu05UEaCyjfkncPCA941oKQLHXMOoeWeUJhPbk5MqA="
class="x_OWAAutoLink" id="LPlnk572592"
moz-do-not-send="true">https://github.com/JeffersonLab/hps-java/blob/master/record-util/src/main/java/org/hps/record/StandardCuts.java#L144</a>)</span><br>
</div>
<hr tabindex="-1" style="display:inline-block; width:98%">
<div id="x_divRplyFwdMsg" dir="ltr"><font style="font-size:11pt"
face="Calibri, sans-serif" color="#000000"><b>From:</b>
Solt, Matthew Reagan <a class="moz-txt-link-rfc2396E" href="mailto:mrsolt@slac.stanford.edu"><mrsolt@slac.stanford.edu></a><br>
<b>Sent:</b> Thursday, January 31, 2019 10:49:36 AM<br>
<b>To:</b> Graf, Norman A.; Graham, Mathew Thomas; Maurik
Holtrop<br>
<b>Cc:</b> Diamond, Miriam; <a class="moz-txt-link-abbreviated" href="mailto:hps-analysis@jlab.org">hps-analysis@jlab.org</a><br>
<b>Subject:</b> Re: [Hps-analysis] Vertex Chisq Probability
Cut?</font>
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<p style="margin-top:0; margin-bottom:0">I think I agree
with Norman here, that I don't really trust the
probabilities now even if it's a simple calculation. Has
anyone studied the value in detail? I'm not sure how much
data this gets rid of right now, my guess is not a lot.
The cut itself is already pretty loose at 1.7e-16, but I
don't really know what vertices this gets rid of. I would
feel more comfortable if this cut were removed. But if
someone shows me that it has been studied and doesn't cut
into displaced signal much, I would be happy to keep it
in.</p>
<p style="margin-top:0; margin-bottom:0"><br>
</p>
<p style="margin-top:0; margin-bottom:0">I do, however, like
Maurik's change that that cut only should apply to
unconstrained so that every vertex is guaranteed one type
of constraint (whether we apply that cut now or in the
future).</p>
<p style="margin-top:0; margin-bottom:0"><br>
</p>
<p style="margin-top:0; margin-bottom:0">Matt Solt<br>
</p>
</div>
<hr tabindex="-1" style="display:inline-block; width:98%">
<div id="x_x_divRplyFwdMsg" dir="ltr"><font
style="font-size:11pt" face="Calibri, sans-serif"
color="#000000"><b>From:</b> Graf, Norman A.
<a class="moz-txt-link-rfc2396E" href="mailto:ngraf@slac.stanford.edu"><ngraf@slac.stanford.edu></a><br>
<b>Sent:</b> Thursday, January 31, 2019 10:32:42 AM<br>
<b>To:</b> Solt, Matthew Reagan; Graham, Mathew Thomas;
Maurik Holtrop<br>
<b>Cc:</b> Diamond, Miriam; <a class="moz-txt-link-abbreviated" href="mailto:hps-analysis@jlab.org">hps-analysis@jlab.org</a><br>
<b>Subject:</b> Re: [Hps-analysis] Vertex Chisq
Probability Cut?</font>
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<p style="margin-top:0; margin-bottom:0">I, for one, don't
trust the current chi-squared values for the vertices
(nor for the track. And to be honest I'm suspicious
about the hit uncertainties, too.) So unless it's a yuge
number of vertices that this cut is eliminating I would
prefer to loosen/eliminate this cut and try to
understand what those vertices are. </p>
<p style="margin-top:0; margin-bottom:0"><br>
</p>
<p style="margin-top:0; margin-bottom:0">Norman</p>
<br>
<br>
<div style="color:rgb(0,0,0)">
<hr tabindex="-1" style="display:inline-block;
width:98%">
<div id="x_x_x_divRplyFwdMsg" dir="ltr"><font
style="font-size:11pt" face="Calibri, sans-serif"
color="#000000"><b>From:</b> Solt, Matthew Reagan
<a class="moz-txt-link-rfc2396E" href="mailto:mrsolt@slac.stanford.edu"><mrsolt@slac.stanford.edu></a><br>
<b>Sent:</b> Thursday, January 31, 2019 10:11 AM<br>
<b>To:</b> Graham, Mathew Thomas; Maurik Holtrop<br>
<b>Cc:</b> Diamond, Miriam; <a class="moz-txt-link-abbreviated" href="mailto:hps-analysis@jlab.org">hps-analysis@jlab.org</a>;
Graf, Norman A.<br>
<b>Subject:</b> Re: [Hps-analysis] Vertex Chisq
Probability Cut?</font>
<div> </div>
</div>
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style="font-size:12pt; color:#000000;
font-family:Calibri,Helvetica,sans-serif">
<p style="margin-top:0; margin-bottom:0">Thanks
Maurik and Miriam,</p>
<p style="margin-top:0; margin-bottom:0"><br>
</p>
<p style="margin-top:0; margin-bottom:0">I think
only having the cut on unconstrained, and writing
out other collections based on that, is a viable
solution. As long as we trust the unconstrained
chisq probabilities enough to do this, which I
have never looked at before yesterday. But, the
question is do we?</p>
<p style="margin-top:0; margin-bottom:0"><br>
</p>
<p style="margin-top:0; margin-bottom:0">Matt Solt<br>
</p>
</div>
<hr tabindex="-1" style="display:inline-block;
width:98%">
<div id="x_x_x_x_divRplyFwdMsg" dir="ltr"><font
style="font-size:11pt" face="Calibri, sans-serif"
color="#000000"><b>From:</b> Graham, Mathew Thomas
<a class="moz-txt-link-rfc2396E" href="mailto:mgraham@slac.stanford.edu"><mgraham@slac.stanford.edu></a><br>
<b>Sent:</b> Thursday, January 31, 2019 9:24:03 AM<br>
<b>To:</b> Maurik Holtrop<br>
<b>Cc:</b> Solt, Matthew Reagan; Diamond, Miriam;
<a class="moz-txt-link-abbreviated" href="mailto:hps-analysis@jlab.org">hps-analysis@jlab.org</a>; Graf, Norman A.<br>
<b>Subject:</b> Re: [Hps-analysis] Vertex Chisq
Probability Cut?</font>
<div> </div>
</div>
<div style="word-wrap:break-word;
line-break:after-white-space">Great! Thanks Maurik.
<br>
<div><br>
<blockquote type="cite">
<div>On Jan 31, 2019, at 10:20 AM, maurik <<a
class="x_x_x_OWAAutoLink" id="LPlnk966409"
href="mailto:maurik@physics.unh.edu"
moz-do-not-send="true">maurik@physics.unh.edu</a>>
wrote:</div>
<br class="x_x_x_x_x_Apple-interchange-newline">
<div>
<div style="word-wrap:break-word;
line-break:after-white-space">Matt, Norman,
<div><br>
</div>
<div>I started iss398 branch and am testing
the code right now. It seems to be passing
the Integration tests.</div>
<div><br>
</div>
<div>I will process an EVIO file locally and
send it to Jlab or SLAC. Let me know where
to put that at SLAC.</div>
<div>Should have it available at the end of
the day for testing.</div>
<div><br>
</div>
<div>Best,</div>
<div><span class="x_x_x_x_x_Apple-tab-span" style="white-space:pre"></span>Maurik<br>
<div><br>
<blockquote type="cite">
<div>On Jan 31, 2019, at 12:06 PM,
maurik <<a
class="x_x_x_OWAAutoLink"
id="LPlnk907847"
href="mailto:maurik@physics.unh.edu"
moz-do-not-send="true">maurik@physics.unh.edu</a>>
wrote:</div>
<br
class="x_x_x_x_x_Apple-interchange-newline">
<div>
<div style="word-wrap:break-word;
line-break:after-white-space">Thanks
Miriam! That is really helpful.
<div><br>
</div>
<div>I am going to start an issue
with a new branch, just to
suggest how we could modify this
part of the code so the
chisquared check is ONLY on the
UNCONSTRAINED vertexes. If it
passes the unconstrained vertex,
then all versions of constrained
are written out.</div>
<div><br>
</div>
<div>- Maurik</div>
<div><br>
<div><br>
<blockquote type="cite">
<div>On Jan 31, 2019, at
11:49 AM, Diamond, Miriam
<<a
class="x_x_x_OWAAutoLink"
id="LPlnk263094"
href="mailto:mdiamond@slac.stanford.edu"
moz-do-not-send="true">mdiamond@slac.stanford.edu</a>>
wrote:</div>
<br
class="x_x_x_x_x_Apple-interchange-newline">
<div>
<div
id="x_x_x_x_x_divtagdefaultwrapper"
dir="ltr"
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<div
style="margin-top:0px;
margin-bottom:0px">It
is indeed part of the
MOUSE cuts: <span style="color:rgb(36,41,46); font-family:SFMono-Regular,Consolas,"Liberation Mono",Menlo,Courier,monospace; font-size:12px; white-space:pre; background-color:rgb(255,251,221)">MinVertexChisqProb</span>.
The cut value can be
set via </div>
<a
class="x_x_x_x_x_OWAAutoLink"
id="LPlnk920184"
href="https://na01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgithub.com%2FJeffersonLab%2Fhps-java%2Fblob%2Fmaster%2Frecon%2Fsrc%2Fmain%2Fjava%2Forg%2Fhps%2Frecon%2Fparticle%2FHpsReconParticleDriver.java%23L281&data=02%7C01%7Crafopar%40jlab.org%7Cb18072903ac543c4cc8608d687b33d45%7Cb4d7ee1f4fb34f0690372b5b522042ab%7C1%7C0%7C636845601240385649&sdata=xNvdKxBG8zDXIzTcPXN8kREe6eTitJyUWX3%2FVVMgr5o%3D&reserved=0"
originalsrc="https://github.com/JeffersonLab/hps-java/blob/master/recon/src/main/java/org/hps/recon/particle/HpsReconParticleDriver.java#L281"
shash="ZaRqDjHBcUeVH7SwwnkhIujEA1PJzp9V/m32DmbeA1qdWILfarNqjQrBF5D4qKhw5MwlOtJSlfmE5KWodLFXeWh30a0VpK/VYzrsDJPn/xgrnIOFENiDH161DlPfXZig2HZeweLALqLtK/EOdTJOKDiikUwAmY9jOVlzvCaPjqo="
moz-do-not-send="true">https://github.com/JeffersonLab/hps-java/blob/master/recon/src/main/java/org/hps/recon/particle/HpsReconParticleDriver.java#L281</a> .;
you could essentially
disable it by setting it
to 0.
<div><br>
<div>The cut is
applied here: <a
class="x_x_x_x_x_OWAAutoLink"
id="LPlnk866444"
href="https://na01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgithub.com%2FJeffersonLab%2Fhps-java%2Fblob%2Fmaster%2Frecon%2Fsrc%2Fmain%2Fjava%2Forg%2Fhps%2Frecon%2Fparticle%2FHpsReconParticleDriver.java%23L626&data=02%7C01%7Crafopar%40jlab.org%7Cb18072903ac543c4cc8608d687b33d45%7Cb4d7ee1f4fb34f0690372b5b522042ab%7C1%7C0%7C636845601240395654&sdata=xnA3cEGf90O9dv7KCYorknQ6ZU8hOWhdmWf8DDFlHDM%3D&reserved=0"
originalsrc="https://github.com/JeffersonLab/hps-java/blob/master/recon/src/main/java/org/hps/recon/particle/HpsReconParticleDriver.java#L626"
shash="IhJ6mKMMInaeyNolG7HVuZy9Y8a2kxvMr2MzV/eiVRqXP1sjbwuyx0f8jl5o++4I5AkqbLrlBJ1tNPqDhzNr58AxW9Z4z+CsSxNRQTr5C2xiimXso/JBkoLPSTAFA01zkBVt8keyJQMnCxkzebSjDBWonSznDbMOmvMdIcd1uiE="
moz-do-not-send="true">https://github.com/JeffersonLab/hps-java/blob/master/recon/src/main/java/org/hps/recon/particle/HpsReconParticleDriver.java#L626</a> </div>
<div><br>
</div>
<div>There are no
grave consequences
to removing this
cut, you'll just get
more junk vertices
in the lcio.<br>
<div
style="margin-top:0px;
margin-bottom:0px"><br>
</div>
<div
style="margin-top:0px;
margin-bottom:0px">--
Miriam</div>
<br>
</div>
</div>
</div>
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<font
style="font-size:11pt"
face="Calibri,
sans-serif"><b>From:</b><span
class="x_x_x_x_x_Apple-converted-space"> </span>Solt, Matthew Reagan
<<a
class="x_x_x_OWAAutoLink"
id="LPlnk973086"
href="mailto:mrsolt@slac.stanford.edu"
moz-do-not-send="true">mrsolt@slac.stanford.edu</a>><br>
<b>Sent:</b><span
class="x_x_x_x_x_Apple-converted-space"> </span>Thursday,
January 31, 2019
12:15:15 AM<br>
<b>To:</b><span
class="x_x_x_x_x_Apple-converted-space"> </span><a
class="x_x_x_OWAAutoLink" id="LPlnk795165"
href="mailto:hps-analysis@jlab.org"
moz-do-not-send="true">hps-analysis@jlab.org</a><br>
<b>Cc:</b><span
class="x_x_x_x_x_Apple-converted-space"> </span>Diamond,
Miriam; Nelson,
Timothy Knight;
Graham, Mathew Thomas;
Graf, Norman A.<br>
<b>Subject:</b><span
class="x_x_x_x_x_Apple-converted-space"> </span>Vertex
Chisq Probability Cut?</font>
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<div
style="margin-top:0px;
margin-bottom:0px">Hi
all,</div>
<div
style="margin-top:0px;
margin-bottom:0px"><br>
</div>
<div
style="margin-top:0px;
margin-bottom:0px">Long
email, executive
summary: we should
remove the vertex
chisq probability
cut in the
reconstruction.
Details below.<br>
</div>
<div
style="margin-top:0px;
margin-bottom:0px"><br>
</div>
<div
style="margin-top:0px;
margin-bottom:0px">There
is a cut in the
reconstruction on
the vertex chisq
probability, which I
think is part of the
MOUSE cuts, that is
causing issues for
displaced A's. Where
has this cut been
verified
(specifically for
displaced A's)?
Plots are attached
that show the
following story.</div>
<div
style="margin-top:0px;
margin-bottom:0px"><br>
</div>
<div
style="margin-top:0px;
margin-bottom:0px">There
is currently a cut
at 1.7e-16 for the
current
reconstruction which
seems fine, except
the distributions
for the beamspot
constrained and
unconstrained
probabilities look
crazy, with bsc
having a significant
number events at a
probability of 0 and
the unconstrained
distributions have
events closer to 1
(I didn't check
target constrained).
For the same vertex,
the reconstruction
can write an
unconstrained vertex
that passes the cut,
but not a bsc that
doesn't pass the cut
(which is definitely
not what we want).
This particularly
effects high z
events, including
clean signal events,
as bsc probability
is highly
anti-correlated with
z. This is actually
how I just noticed
it today, while
looking at displaced
A's which have very
few reconstructed
high z events. This
effect is not
noticeable in either
data or MC because
the it really only
effects high z
events (both good
signal and
background).</div>
<div
style="margin-top:0px;
margin-bottom:0px"><br>
</div>
<div
style="margin-top:0px;
margin-bottom:0px">What's
worse is that
apparently the tuple
maker requires a
vertex to have both
a bsc and
unconstrained
collection, so if it
doesn't have a bsc
vertex it throws
them both away even
if the unconstrained
passes the cut (not
true in the lcio). I
first noticed it in
the displaced A'
tuples (which have
the default cut of
0.00001, so even
worse than the data
reconstruction).</div>
<div
style="margin-top:0px;
margin-bottom:0px"><br>
</div>
<div
style="margin-top:0px;
margin-bottom:0px">What
affect does this
have on current
pass4? It doesn't
effect the core
distributions much
at all, which is why
I didn't catch it
yet. It only really
affects high z
signal and
background (which is
obviously
important). The
unconstrained
collection is
probably ok in the
lcio files, it's
more just the
beamspot constrained
collection and the
ntuples.</div>
<div
style="margin-top:0px;
margin-bottom:0px"><br>
</div>
<div
style="margin-top:0px;
margin-bottom:0px">So,
why do the vertex
chisq probability
distributions look
weird? I don't know,
I haven't had time
to dig that far. But
since I don't think
we understand this
effect, and we are
trying to compute
our data ASAP, we
should remove the
cut in the
reconstruction for
now. If there are
consequences to
removing this cut,
someone should speak
up (Tim, Miriam,
Matt, Norman?).</div>
<div
style="margin-top:0px;
margin-bottom:0px"><br>
</div>
<div
style="margin-top:0px;
margin-bottom:0px">I
hope I was clear,
but I'm sure some of
you will have
questions. Also, if
someone gets a
chance, can someone
verify these
probability plots?
Thanks.</div>
<div
style="margin-top:0px;
margin-bottom:0px"><br>
</div>
<div
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margin-bottom:0px">Matt
Solt<br>
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