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    <title>PFS-JIRA</title>
    <link>https://pfspipe.ipmu.jp/jira</link>
    <description>This file is an XML representation of an issue</description>
    <language>en-us</language>    <build-info>
        <version>8.3.4</version>
        <build-number>803005</build-number>
        <build-date>13-09-2019</build-date>
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<item>
            <title>[PIPE2D-953] Create high signal-to-noise spectra of calib lamps</title>
                <link>https://pfspipe.ipmu.jp/jira/browse/PIPE2D-953</link>
                <project id="10002" key="PIPE2D">DRP 2-D Pipeline</project>
                    <description>&lt;p&gt;Using the observations taken with PFI in November and September runs, create the highest possible signal-to-noise spectra of all available calib lamps.&lt;/p&gt;</description>
                <environment></environment>
        <key id="18375">PIPE2D-953</key>
            <summary>Create high signal-to-noise spectra of calib lamps</summary>
                <type id="3" iconUrl="https://pfspipe.ipmu.jp/jira/secure/viewavatar?size=xsmall&amp;avatarId=10518&amp;avatarType=issuetype">Task</type>
                                            <priority id="10000" iconUrl="https://pfspipe.ipmu.jp/jira/images/icons/priorities/medium.svg">Normal</priority>
                        <status id="10002" iconUrl="https://pfspipe.ipmu.jp/jira/images/icons/statuses/generic.png" description="The issue is resolved, reviewed, and merged">Done</status>
                    <statusCategory id="3" key="done" colorName="green"/>
                                    <resolution id="10000">Done</resolution>
                                        <assignee username="ncaplar">ncaplar</assignee>
                                    <reporter username="ncaplar">ncaplar</reporter>
                        <labels>
                    </labels>
                <created>Tue, 30 Nov 2021 19:51:12 +0000</created>
                <updated>Mon, 7 Mar 2022 14:02:41 +0000</updated>
                            <resolved>Thu, 10 Feb 2022 15:06:31 +0000</resolved>
                                                                        <due></due>
                            <votes>0</votes>
                                    <watches>2</watches>
                                                                <comments>
                            <comment id="30424" author="ncaplar" created="Wed, 2 Feb 2022 23:19:05 +0000"  >&lt;p&gt;I have created the spectra for our lamp lines at Subaru. The visit used are:&lt;/p&gt;

&lt;p&gt;Krypton - from visits 71155, 71156, 71157&lt;br/&gt;
Argon - from visits 71162, 71163, 71164&lt;br/&gt;
Xenon - from visits 71159, 71160, 71161&lt;br/&gt;
Neon - from visits 68640, 68641, 68642&lt;br/&gt;
Hgcd - from visit 67757&lt;br/&gt;
Haloen - from visit 68087&lt;/p&gt;

&lt;p&gt;I generate the lines by using interpolateFlux (from  from pfs.drp.stella.interpolate) to interpolate all fibers from an exposure to the same grid. I then calculate mean out of all of the interpolated fibers, from all of the avaliable exposures. I normalize the flux to 1 second, by dividing the data by the effective exposure time. &lt;/p&gt;

&lt;p&gt;I have also created csv files, which I have shared with JEG.&lt;/p&gt;</comment>
                            <comment id="30425" author="ncaplar" created="Wed, 2 Feb 2022 23:19:46 +0000"  >&lt;p&gt;Hassan can you please check that you can load pandas files and that they look reasonable?&lt;/p&gt;</comment>
                            <comment id="30426" author="price" created="Thu, 3 Feb 2022 00:14:15 +0000"  >&lt;p&gt;What was the quality of the wavelength solutions?&lt;/p&gt;</comment>
                            <comment id="30429" author="ncaplar" created="Thu, 3 Feb 2022 13:35:37 +0000"  >&lt;p&gt;Sent to JEG for his comments. Still working with him to understand if he is satisfied with the analysis I did.&lt;/p&gt;

&lt;p&gt;&lt;a href=&quot;https://pfspipe.ipmu.jp/jira/secure/ViewProfile.jspa?name=price&quot; class=&quot;user-hover&quot; rel=&quot;price&quot;&gt;price&lt;/a&gt; Can you perhaps elaborate? To get spectra I ran&#160;&lt;tt&gt;reduceExposure&lt;/tt&gt;, and then interpolateFlux on &lt;tt&gt;pfsArm.flux&lt;/tt&gt; arrays. See November 11, 2021 discussion in zoom chat with me, you and Hassan. I ran &lt;tt&gt;reduceExposure&lt;/tt&gt; because &lt;tt&gt;reduceArc&lt;/tt&gt; does not succeed for all arclines (if there are no lines on r or b detector for that particular arcline), so I wanted to be consistent across all detectors and lines. I have a felling that you would do something much differently? &lt;/p&gt;</comment>
                            <comment id="30430" author="price" created="Thu, 3 Feb 2022 14:06:23 +0000"  >&lt;p&gt;Did &lt;tt&gt;reduceExposure&lt;/tt&gt; use the &lt;tt&gt;adjustDetectorMap&lt;/tt&gt; feature? If so, what did it report as the quality of the fit?&lt;/p&gt;</comment>
                            <comment id="30431" author="ncaplar" created="Thu, 3 Feb 2022 14:09:33 +0000"  >&lt;p&gt;No, because it fails when there are not enough lines (fails in &lt;tt&gt;doAperatureCorrection&lt;/tt&gt; ) step. Typical command I have used is: &lt;/p&gt;
&lt;div class=&quot;code panel&quot; style=&quot;border-width: 1px;&quot;&gt;&lt;div class=&quot;codeContent panelContent&quot;&gt;
&lt;pre class=&quot;code-java&quot;&gt;
reduceExposure.py /projects/HSC/PFS/Subaru --calib /projects/HSC/PFS/Subaru/CALIB-PFI-20211220/ --rerun ncaplar/PIPE2D-953 --id visit=71155 -j 20 -c isr.doFlat=False doAdjustDetectorMap=False photometerLines.doApertureCorrection=False --clobber-config
&lt;/pre&gt;
&lt;/div&gt;&lt;/div&gt;</comment>
                            <comment id="30432" author="ncaplar" created="Thu, 3 Feb 2022 23:17:24 +0000"  >&lt;p&gt;Paul, I reran with&#160;&#160;&lt;br/&gt;
&lt;tt&gt;doAdjustDetectorMap=True photometerLines.doApertureCorrection=False&lt;/tt&gt;&lt;br/&gt;
 and these are summary results at the end of processing. Find results in the gist below. Is that what you had in mind?&lt;/p&gt;

&lt;p&gt;&lt;a href=&quot;https://gist.github.com/nevencaplar/cdf761414ddd7febf42dc541ea49d01a&quot; class=&quot;external-link&quot; rel=&quot;nofollow&quot;&gt;https://gist.github.com/nevencaplar/cdf761414ddd7febf42dc541ea49d01a&lt;/a&gt;&lt;/p&gt;</comment>
                            <comment id="30434" author="price" created="Fri, 4 Feb 2022 14:39:36 +0000"  >&lt;p&gt;That&apos;s good, thanks.&lt;/p&gt;</comment>
                            <comment id="30435" author="ncaplar" created="Fri, 4 Feb 2022 14:45:21 +0000"  >&lt;p&gt;I am currently waiting for comments by Jim if the format I have provided is acceptable to him. If he does not get back to me I will ask him on Monday meeting. I have also rerun everything with &lt;tt&gt;doAdjustDetectorMap=True&lt;/tt&gt;, and changes are minor. If Jim gives ok, I will upload the final version and close.&lt;/p&gt;</comment>
                            <comment id="30441" author="ncaplar" created="Tue, 8 Feb 2022 19:59:50 +0000"  >&lt;p&gt;I have talked with Jim today. He is fine with the format and information contained, he only wants the continuum (halogen) lamp to be added to the mix.&lt;/p&gt;</comment>
                            <comment id="30444" author="ncaplar" created="Wed, 9 Feb 2022 18:51:46 +0000"  >&lt;p&gt;Added another version. The difference from last attempt is: &lt;/p&gt;

&lt;p&gt;1. Continuum added &lt;br/&gt;
2. Pipeline ran with detectorMap being adjusted using lines from each lamp. Makes minimal differences to the actual result.&lt;/p&gt;</comment>
                    </comments>
                <issuelinks>
                            <issuelinktype id="10003">
                    <name>Relates</name>
                                            <outwardlinks description="relates to">
                                        <issuelink>
            <issuekey id="22668">PIPE2D-998</issuekey>
        </issuelink>
                            </outwardlinks>
                                                        </issuelinktype>
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                <attachments>
                            <attachment id="15105" name="PFI_lines_csv_files_v4.zip" size="991688" author="ncaplar" created="Wed, 9 Feb 2022 18:34:48 +0000"/>
                            <attachment id="15106" name="PFI_lines_pkl_files_v4.zip" size="822441" author="ncaplar" created="Wed, 9 Feb 2022 18:34:52 +0000"/>
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