<html><head><meta http-equiv="Content-Type" content="text/html charset=utf-8"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><div class="">Jim / Robert,</div><div class=""><br class=""></div>I’ve been running everything from python so I guess I will stick to help(). Is there a way that I can help edit the documentation as I learn things? For example I could help add some meat to things like:<div class=""><br class=""></div><div class=""><pre style="box-sizing: border-box; overflow: auto; font-size: 14px; padding: 0px; margin-top: 0px; margin-bottom: 0px; line-height: 17.000059127807617px; word-break: break-all; word-wrap: break-word; border: 0px; border-top-left-radius: 0px; border-top-right-radius: 0px; border-bottom-right-radius: 0px; border-bottom-left-radius: 0px; white-space: pre-wrap; vertical-align: baseline;" class="">reEstimateBackground
 |      Estimate the background again after final source detection?</pre><div class=""><br class=""></div><div class="">Although I completely understand if you don’t want people who are just learning things to be editing the help documentation.</div><div class=""><br class=""></div><div class="">Thanks again,</div><div class="">Will</div><div class=""><br class=""><div><blockquote type="cite" class=""><div class="">On May 11, 2015, at 3:13 PM, Jim Bosch <<a href="mailto:jbosch@astro.princeton.edu" class="">jbosch@astro.princeton.edu</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""><div dir="ltr" class="">The Doxygen is good for some things, but the configuration of Python code isn't one of them.  If you're running a command-line task, then Robert's suggestion is the way to go.  If not, I recommend just using Python's help() function on the config object - that should get you the list of options and some documentation for each of them.<div class=""><br class=""></div><div class="">Jim</div><div class=""><br class=""></div></div><div class="gmail_extra"><br class=""><div class="gmail_quote">On Mon, May 11, 2015 at 6:10 PM, Robert Lupton the Good <span dir="ltr" class=""><<a href="mailto:rhl@astro.princeton.edu" target="_blank" class="">rhl@astro.princeton.edu</a>></span> wrote:<br class=""><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="auto" class=""><div class="">I don't know how you are running your task, but if it's using commandLineTask then </div><div class="">   --show=*[Bb]ackground* </div><div class="">should show all configuration parameters matching the glob. (Benighted [t]csh users will need to quote the pattern)<br class=""><br class="">        R</div><span class=""><div class=""><br class="">On 11 May 2015, at 18:00, Jim Bosch <<a href="mailto:jbosch@astro.princeton.edu" target="_blank" class="">jbosch@astro.princeton.edu</a>> wrote:<br class=""><br class=""></div></span><blockquote type="cite" class=""><div class=""><span class=""><div dir="ltr" class="">I think this should be just a matter of setting<div class=""><br class=""></div><div class=""><span style="font-size:12.8000001907349px" class="">detectSourcesConfig.reEstimateBackground = False</span><br class=""></div><div class=""><br class=""></div><div class=""><br class=""></div><div class=""><span style="font-size:12.8000001907349px" class=""><br class=""></span></div><div class=""><span style="font-size:12.8000001907349px" class="">Jim</span></div><div class=""><span style="font-size:12.8000001907349px" class=""><br class=""></span></div><div class=""><span style="font-size:12.8000001907349px" class=""><br class=""></span></div></div></span><div class="gmail_extra"><br class=""><div class="gmail_quote"><span class="">On Mon, May 11, 2015 at 5:41 PM, Will Dawson <span dir="ltr" class=""><<a href="mailto:will@dawsonresearch.com" target="_blank" class="">will@dawsonresearch.com</a>></span> wrote:<br class=""></span><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div style="word-wrap:break-word" class=""><span class="">I am trying to use DM Stack detect and analyze in object in a small postage stamp (see attached example, log scale). I know I can use lsst.afw.detection.Threshold() with lsst.afw.detection.FootprintSet() to create a footprint for the detected object. But I also (first) tried lsst.meas.algorithms.SourceDetectionTask(config=detectSourcesConfig, "other args") with config set as:</span><div class=""><span class=""><br class=""><div class="">detectSourcesConfig   = measAlg.SourceDetectionConfig(thresholdType='value’)</div><div class="">or</div><div class="">detectSourcesConfig   = measAlg.SourceDetectionConfig(thresholdType='value',thresholdValue=0)</div><div class=""><br class=""></div><div class="">and got the error at the end of this email. I am not entirely sure how to parse this error statement, but if I had to guess: no objects are being detected because it is trying to estimate the background based on this stamp which contains primary just the object thus when it does image - background there is nothing above threshold left to detect. Or it chokes when trying to estimate the background.</div></span><div class=""><span class=""><div class=""><br class=""></div><div class="">Is there an option to run lsst.meas.algorithms.SourceDetectionTask with the background estimation/ subtraction process turned off? For example when detecting objects on an image that already has the background subtracted. Perhaps the only option is to stick with the detection.FootprintSet method. </div><div class=""><br class=""></div><div class="">Thanks,</div><div class="">Will</div></span><div class=""><br class=""><div class=""><br class=""></div><div class=""> <28x28stamp.png></div></div><div class=""><div class="h5"><div class=""><br class=""></div><div class=""><pre style="overflow:auto;font-size:14px;padding:0px;margin-top:0px;margin-bottom:0px;line-height:17.000059127807617px;word-break:break-all;word-wrap:break-word;border:0px;border-top-left-radius:0px;border-top-right-radius:0px;border-bottom-right-radius:0px;border-bottom-left-radius:0px;white-space:pre-wrap;vertical-align:baseline" class=""><span style="color:rgb(139,0,0)" class="">---------------------------------------------------------------------------</span>
<span style="color:rgb(139,0,0)" class="">InvalidParameterError</span>                     Traceback (most recent call last)
<span style="color:rgb(0,100,0)" class=""><ipython-input-66-d08d86b9540f></span> in <span style="color:rgb(70,130,180)" class=""><module><span style="color:rgb(0,0,139)" class="">()</span>
<span style="color:rgb(0,100,0)" class="">      2</span> <span style="color:rgb(139,0,0)" class=""># catalog atually stores stuff)</span><span style="color:rgb(0,0,139)" class=""></span><span style="color:rgb(0,0,139)" class=""></span>
<span style="color:rgb(0,100,0)" class="">      3</span> table   <span style="color:rgb(0,0,139)" class="">=</span> afwTable<span style="color:rgb(0,0,139)" class="">.</span>SourceTable<span style="color:rgb(0,0,139)" class="">.</span>make<span style="color:rgb(0,0,139)" class="">(</span>schema<span style="color:rgb(0,0,139)" class="">)</span><span style="color:rgb(0,0,139)" class=""></span>
<span style="color:rgb(0,100,0)" class="">----> 4<span style="color:rgb(139,0,0)" class=""> </span>catalog <span style="color:rgb(0,0,139)" class="">=</span> detect<span style="color:rgb(0,0,139)" class="">.</span>makeSourceCatalog<span style="color:rgb(0,0,139)" class="">(</span>table<span style="color:rgb(0,0,139)" class="">,</span> exposure<span style="color:rgb(0,0,139)" class="">,</span> sigma<span style="color:rgb(0,0,139)" class="">=</span><span style="color:rgb(70,130,180)" class="">3</span><span style="color:rgb(0,0,139)" class="">)</span><span style="color:rgb(0,0,139)" class=""></span>

<span class="">/Users/dawson/lsst/DarwinX86/pipe_base/10.0+2/python/lsst/pipe/base/timer.pyc</span> in <span style="color:rgb(70,130,180)" class="">wrapper<span style="color:rgb(0,0,139)" class="">(self, *args, **keyArgs)</span>
<span style="color:rgb(0,100,0)" class="">    116</span>         logInfo<span style="color:rgb(0,0,139)" class="">(</span>obj <span style="color:rgb(0,0,139)" class="">=</span> self<span style="color:rgb(0,0,139)" class="">,</span> prefix <span style="color:rgb(0,0,139)" class="">=</span> func<span style="color:rgb(0,0,139)" class="">.</span>__name__ <span style="color:rgb(0,0,139)" class="">+</span> <span style="color:rgb(0,0,139)" class="">"Start"</span><span style="color:rgb(0,0,139)" class="">)</span><span style="color:rgb(0,0,139)" class=""></span>
<span style="color:rgb(0,100,0)" class="">    117</span>         <span style="color:rgb(0,100,0)" class="">try</span><span style="color:rgb(0,0,139)" class="">:</span><span style="color:rgb(0,0,139)" class=""></span>
<span style="color:rgb(0,100,0)" class="">--> 118<span style="color:rgb(139,0,0)" class="">             </span>res <span style="color:rgb(0,0,139)" class="">=</span> func<span style="color:rgb(0,0,139)" class="">(</span>self<span style="color:rgb(0,0,139)" class="">,</span> <span style="color:rgb(0,0,139)" class="">*</span>args<span style="color:rgb(0,0,139)" class="">,</span> <span style="color:rgb(0,0,139)" class="">**</span>keyArgs<span style="color:rgb(0,0,139)" class="">)</span><span style="color:rgb(0,0,139)" class=""></span>
<span class="">    119</span>         <span class="">finally</span><span style="color:rgb(0,0,139)" class="">:</span><span style="color:rgb(0,0,139)" class=""></span>
<span class="">    120</span>             logInfo<span style="color:rgb(0,0,139)" class="">(</span>obj <span style="color:rgb(0,0,139)" class="">=</span> self<span style="color:rgb(0,0,139)" class="">,</span> prefix <span style="color:rgb(0,0,139)" class="">=</span> func<span style="color:rgb(0,0,139)" class="">.</span>__name__ <span style="color:rgb(0,0,139)" class="">+</span> <span style="color:rgb(0,0,139)" class="">"End"</span><span style="color:rgb(0,0,139)" class="">)</span><span style="color:rgb(0,0,139)" class=""></span>

<span class="">/Users/dawson/lsst/DarwinX86/meas_algorithms/10.0+2/python/lsst/meas/algorithms/detection.pyc</span> in <span style="color:rgb(70,130,180)" class="">run<span style="color:rgb(0,0,139)" class="">(self, table, exposure, doSmooth, sigma, clearMask)</span>
<span style="color:rgb(0,100,0)" class="">    313</span>             <span style="color:rgb(0,100,0)" class="">raise</span> ValueError<span style="color:rgb(0,0,139)" class="">(</span><span style="color:rgb(0,0,139)" class="">"Table has incorrect Schema"</span><span style="color:rgb(0,0,139)" class="">)</span><span style="color:rgb(0,0,139)" class=""></span>
<span style="color:rgb(0,100,0)" class="">    314</span>         fpSets = self.detectFootprints(exposure=exposure, doSmooth=doSmooth, sigma=sigma,
<span style="color:rgb(0,100,0)" class="">--> 315<span style="color:rgb(139,0,0)" class="">                                        clearMask=clearMask)
</span><span class="">    316</span>         sources <span style="color:rgb(0,0,139)" class="">=</span> afwTable<span style="color:rgb(0,0,139)" class="">.</span>SourceCatalog<span style="color:rgb(0,0,139)" class="">(</span>table<span style="color:rgb(0,0,139)" class="">)</span><span style="color:rgb(0,0,139)" class=""></span>
<span class="">    317</span>         table<span style="color:rgb(0,0,139)" class="">.</span>preallocate<span style="color:rgb(0,0,139)" class="">(</span>fpSets<span style="color:rgb(0,0,139)" class="">.</span>numPos <span style="color:rgb(0,0,139)" class="">+</span> fpSets<span style="color:rgb(0,0,139)" class="">.</span>numNeg<span style="color:rgb(0,0,139)" class="">)</span> <span style="color:rgb(139,0,0)" class=""># not required, but nice</span><span style="color:rgb(0,0,139)" class=""></span>

<span class="">/Users/dawson/lsst/DarwinX86/pipe_base/10.0+2/python/lsst/pipe/base/timer.pyc</span> in <span style="color:rgb(70,130,180)" class="">wrapper<span style="color:rgb(0,0,139)" class="">(self, *args, **keyArgs)</span>
<span style="color:rgb(0,100,0)" class="">    116</span>         logInfo<span style="color:rgb(0,0,139)" class="">(</span>obj <span style="color:rgb(0,0,139)" class="">=</span> self<span style="color:rgb(0,0,139)" class="">,</span> prefix <span style="color:rgb(0,0,139)" class="">=</span> func<span style="color:rgb(0,0,139)" class="">.</span>__name__ <span style="color:rgb(0,0,139)" class="">+</span> <span style="color:rgb(0,0,139)" class="">"Start"</span><span style="color:rgb(0,0,139)" class="">)</span><span style="color:rgb(0,0,139)" class=""></span>
<span style="color:rgb(0,100,0)" class="">    117</span>         <span style="color:rgb(0,100,0)" class="">try</span><span style="color:rgb(0,0,139)" class="">:</span><span style="color:rgb(0,0,139)" class=""></span>
<span style="color:rgb(0,100,0)" class="">--> 118<span style="color:rgb(139,0,0)" class="">             </span>res <span style="color:rgb(0,0,139)" class="">=</span> func<span style="color:rgb(0,0,139)" class="">(</span>self<span style="color:rgb(0,0,139)" class="">,</span> <span style="color:rgb(0,0,139)" class="">*</span>args<span style="color:rgb(0,0,139)" class="">,</span> <span style="color:rgb(0,0,139)" class="">**</span>keyArgs<span style="color:rgb(0,0,139)" class="">)</span><span style="color:rgb(0,0,139)" class=""></span>
<span class="">    119</span>         <span class="">finally</span><span style="color:rgb(0,0,139)" class="">:</span><span style="color:rgb(0,0,139)" class=""></span>
<span class="">    120</span>             logInfo<span style="color:rgb(0,0,139)" class="">(</span>obj <span style="color:rgb(0,0,139)" class="">=</span> self<span style="color:rgb(0,0,139)" class="">,</span> prefix <span style="color:rgb(0,0,139)" class="">=</span> func<span style="color:rgb(0,0,139)" class="">.</span>__name__ <span style="color:rgb(0,0,139)" class="">+</span> <span style="color:rgb(0,0,139)" class="">"End"</span><span style="color:rgb(0,0,139)" class="">)</span><span style="color:rgb(0,0,139)" class=""></span>

<span class="">/Users/dawson/lsst/DarwinX86/meas_algorithms/10.0+2/python/lsst/meas/algorithms/detection.pyc</span> in <span style="color:rgb(70,130,180)" class="">detectFootprints<span style="color:rgb(0,0,139)" class="">(self, exposure, doSmooth, sigma, clearMask)</span>
<span style="color:rgb(0,100,0)" class="">    443</span>             fpSets<span style="color:rgb(0,0,139)" class="">.</span>background <span style="color:rgb(0,0,139)" class="">=</span> bkgd<span style="color:rgb(0,0,139)" class=""></span>
<span style="color:rgb(0,100,0)" class="">    444</span>             self<span style="color:rgb(0,0,139)" class="">.</span>log<span style="color:rgb(0,0,139)" class="">.</span>log<span style="color:rgb(0,0,139)" class="">(</span>self<span style="color:rgb(0,0,139)" class="">.</span>log<span style="color:rgb(0,0,139)" class="">.</span>INFO<span style="color:rgb(0,0,139)" class="">,</span> <span style="color:rgb(0,0,139)" class="">"Resubtracting the background after object detection"</span><span style="color:rgb(0,0,139)" class="">)</span><span style="color:rgb(0,0,139)" class=""></span>
<span style="color:rgb(0,100,0)" class="">--> 445<span style="color:rgb(139,0,0)" class="">             </span>mi <span style="color:rgb(0,0,139)" class="">-=</span> bkgd<span style="color:rgb(0,0,139)" class="">.</span>getImageF<span style="color:rgb(0,0,139)" class="">(</span><span style="color:rgb(0,0,139)" class="">)</span><span style="color:rgb(0,0,139)" class=""></span>
<span class="">    446</span>             <span class="">del</span> mi<span style="color:rgb(0,0,139)" class=""></span>
<span class="">    447</span> <span style="color:rgb(0,0,139)" class=""></span>

<span class="">/Users/dawson/lsst/DarwinX86/afw/10.0+3/python/lsst/afw/math/mathLib.pyc</span> in <span style="color:rgb(70,130,180)" class="">getImageF<span style="color:rgb(0,0,139)" class="">(self, *args)</span>
<span style="color:rgb(0,100,0)" class="">   5736</span>         getImageF<span style="color:rgb(0,0,139)" class="">(</span>Background self<span style="color:rgb(0,0,139)" class="">)</span> <span style="color:rgb(0,0,139)" class="">-</span><span style="color:rgb(0,0,139)" class="">></span> boost<span style="color:rgb(0,0,139)" class="">:</span><span style="color:rgb(0,0,139)" class="">:</span>shared_ptr<span style="color:rgb(0,0,139)" class=""><</span> lsst<span style="color:rgb(0,0,139)" class="">:</span><span style="color:rgb(0,0,139)" class="">:</span>afw<span style="color:rgb(0,0,139)" class="">:</span><span style="color:rgb(0,0,139)" class="">:</span>image<span style="color:rgb(0,0,139)" class="">:</span><span style="color:rgb(0,0,139)" class="">:</span>Image<span style="color:rgb(0,0,139)" class=""><</span> float <span style="color:rgb(0,0,139)" class="">></span> <span style="color:rgb(0,0,139)" class="">></span><span style="color:rgb(0,0,139)" class=""></span>
<span style="color:rgb(0,100,0)" class="">   5737</span>         """
<span style="color:rgb(0,100,0)" class="">-> 5738<span style="color:rgb(139,0,0)" class="">         <span style="color:rgb(0,100,0)" class="">return</span> _mathLib<span style="color:rgb(0,0,139)" class="">.</span>Background_getImageF<span style="color:rgb(0,0,139)" class="">(</span>self<span style="color:rgb(0,0,139)" class="">,</span> <span style="color:rgb(0,0,139)" class="">*</span>args<span style="color:rgb(0,0,139)" class="">)</span><span style="color:rgb(0,0,139)" class=""></span>
<span style="color:rgb(0,100,0)" class="">   5739</span> <span style="color:rgb(0,0,139)" class=""></span>
<span style="color:rgb(0,100,0)" class="">   5740</span>     <span style="color:rgb(0,100,0)" class="">def</span> getImageI<span style="color:rgb(0,0,139)" class="">(</span>self<span style="color:rgb(0,0,139)" class="">,</span> <span style="color:rgb(0,0,139)" class="">*</span>args<span style="color:rgb(0,0,139)" class="">)</span><span style="color:rgb(0,0,139)" class="">:</span><span style="color:rgb(0,0,139)" class=""></span>

<span class="">InvalidParameterError</span>: 
  File "src/math/<a href="http://interpolate.cc/" target="_blank" class="">Interpolate.cc</a>", line 60, in std::pair<std::vector<double>, std::vector<double> > lsst::afw::math::(anonymous namespace)::recenter(const std::vector<double> &, const std::vector<double> &)
    You must provide at least 1 point {0}
  File "src/math/<a href="http://backgroundmi.cc/" target="_blank" class="">BackgroundMI.cc</a>", line 196, in void lsst::afw::math::BackgroundMI::_setGridColumns(const Interpolate::Style, const lsst::afw::math::UndersampleStyle, const int, const std::vector<int> &) const
    setting _gridcolumns {1}
lsst::pex::exceptions::InvalidParameterError: 'You must provide at least 1 point {0}; setting _gridcolumns {1}'
</span></span></span></span></span></span></span></span></span></span></span></span></span></pre></div><div class=""><span style="color:rgb(70,130,180)" class=""><span style="color:rgb(0,100,0)" class=""><span style="color:rgb(70,130,180)" class=""><span style="color:rgb(0,100,0)" class=""><span style="color:rgb(70,130,180)" class=""><span style="color:rgb(0,100,0)" class=""><span style="color:rgb(70,130,180)" class=""><span style="color:rgb(0,100,0)" class=""><span style="color:rgb(70,130,180)" class=""><span style="color:rgb(0,100,0)" class=""><span style="color:rgb(70,130,180)" class=""><span style="color:rgb(0,100,0)" class=""><span style="color:rgb(139,0,0)" class=""><br class=""></span></span></span></span></span></span></span></span></span></span></span></span></span></div></div></div></div></div></div><div class=""><div class="h5"><br class="">_______________________________________________<br class="">
dm-users mailing list<br class="">
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